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29 pages, 6798 KiB  
Article
Optimization of Black Garlic Protein Extraction Process and Exploration of Its Properties and Functions with Enzymatic Hydrolysis Products
by Jian Liu, Yuanyuan Wang, Bo Wang, Wei Zhang, Xiaoyu Ren, Youchuang Zhang, Lijun Jiang, Chunming Dong and Guihong Zhao
Molecules 2025, 30(1), 125; https://doi.org/10.3390/molecules30010125 - 31 Dec 2024
Viewed by 154
Abstract
This study optimized the process of extracting protein from black garlic using an alkaline dissolution and acid precipitation method through response surface methodology. The optimal extraction conditions were determined as a solid-to-liquid ratio of 1:50, an extraction time of 100 min, an extraction [...] Read more.
This study optimized the process of extracting protein from black garlic using an alkaline dissolution and acid precipitation method through response surface methodology. The optimal extraction conditions were determined as a solid-to-liquid ratio of 1:50, an extraction time of 100 min, an extraction temperature of 30 °C, and an alkaline extraction pH of 9.0. Under these optimized conditions, the actual black garlic protein (BGP) extraction yield was 12.10% ± 0.21%, and the isoelectric point of the obtained BGP was 3.1. Subsequently, this study extracted black garlic protein under optimal conditions and subjected it to enzymatic hydrolysis using different enzymes (trypsin, pepsin, and their mixed enzymes). The functional characteristics, antioxidant activity, and hypoglycemic activity of black garlic protein before and after enzymatic hydrolysis were compared. Among the hydrolysates, the pepsin hydrolysate (BGPH-P) had the smallest particle size (188.57 ± 1.93 nm) and the highest Zeta potential (−29.93 ± 0.42 mV). Scanning electron microscopy showed that BGPH-P had the smallest and most dispersed particles. Fourier-transform infrared (FTIR) spectroscopy revealed that the dual enzymatic hydrolysis hydrolysate (BGPH-PT) exhibited the most stable structure. Compared to BGP, the hydrolysates demonstrated significantly improved solubility, water-holding capacity, and foaming ability (p < 0.05), while their emulsifying activity, emulsion stability, DPPH radical scavenging capacity, and hypoglycemic activity decreased. In summary, the BGP extracted using the optimized process demonstrated good antioxidant and hypoglycemic activities, while its enzymatic hydrolysate BGPH-P exhibited excellent solubility, water-holding capacity, and emulsifying properties, providing valuable insights for the further development of black garlic protein and its hydrolysates. Full article
22 pages, 9563 KiB  
Article
Identification of Kunitz-Type Inhibitor Gene Family of Populus yunnanensis Reveals a Stress Tolerance Function in Inverted Cuttings
by Haiyang Guo, Shaojie Ma, Xiaolin Zhang, Rong Xu, Cai Wang, Shihai Zhang, Lihong Zhao, Dan Li and Dan Zong
Int. J. Mol. Sci. 2025, 26(1), 188; https://doi.org/10.3390/ijms26010188 - 29 Dec 2024
Viewed by 384
Abstract
Plant protease inhibitors are a ubiquitous feature of plant species and exert a substantial influence on plant stress responses. However, the KTI (Kunitz trypsin inhibitor) family responding to abiotic stress has not been fully characterized in Populus yunnanensis. In this study, we [...] Read more.
Plant protease inhibitors are a ubiquitous feature of plant species and exert a substantial influence on plant stress responses. However, the KTI (Kunitz trypsin inhibitor) family responding to abiotic stress has not been fully characterized in Populus yunnanensis. In this study, we conducted a genome-wide study of the KTI family and analyzed their gene structure, gene duplication, conserved motifs, cis-acting elements, and response to stress treatment. A total of 29 KTIs were identified in the P. yunnanensis genome. Based on phylogenetic analysis, the PyKTIs were divided into four groups (1,2, 3, and 4). Promoter sequence analysis showed that the PyKTIs contain many cis-acting elements related to light, plant growth, hormone, and stress responses, indicating that PyKTIs are widely involved in various biological regulatory processes. RNA sequencing and real-time quantitative polymerase chain reaction analysis showed that KTI genes were differentially expressed under the inverted cutting stress of P. yunnanensis. Transcriptome analysis of P. yunnanensis leaves revealed that PyKTI16, PyKTI18, and PyKTI19 were highly upregulated after inverted cutting. Through the GEO query of Populus transcriptome data, KTI genes played a positive defense role in MeJa, drought, time series, and pathogen stress. This study provided comprehensive information for the KTI family in P. yunnanensis, which should be helpful for the functional characterization of P. yunnanensis KTI genes in the future. Full article
(This article belongs to the Special Issue Plant Physiology and Molecular Nutrition)
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Figure 1

Figure 1
<p>Phylogenetic relationship of <span class="html-italic">KTI</span> gene family. The MEGA 11 with the neighbor-joining method was used to conduct the phylogenetic tree. Different background colors represented different groups of the <span class="html-italic">KTI</span> gene family.</p>
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<p>Phylogeny during the evolution of angiosperms. Different colors represent the proportion of each species in the four groups.</p>
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<p>Sequence alignment of functional sites of PDB and PyunKTI proteins of <span class="html-italic">V. vinifera</span> (5YH4) and <span class="html-italic">Populus</span> (Q5ZFE7) homologous proteins. A red background indicates complete amino acid sequence identity at the position; a yellow background indicates higher similarity.</p>
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<p>Phylogenetic tree, conserved motif, and gene structure of the PyunKTI proteins. Different colors on the phylogenetic tree represent different groups of Pyun<span class="html-italic">KTI</span> genes family. In the motif pattern, the motif numbers 1–15 are displayed in different colored boxes. In exon–intron analysis, the black lines represent introns, the green boxes represent the coding sequences, and the yellow boxes represent the non-coding sequences.</p>
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<p>Chromosomal distribution of <span class="html-italic">P. yunnanensis PyunKTI</span> genes. Tandem replication genes are shown in red.</p>
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<p>Synteny analysis of the <span class="html-italic">PyunKTI</span> genes in <span class="html-italic">P. yunnanensis</span>.</p>
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<p>Synteny analysis of the <span class="html-italic">PyunKTI</span> genes in <span class="html-italic">P. yunnanensis</span>, <span class="html-italic">P. trichocarpa</span>, <span class="html-italic">A. thaliana,</span> and <span class="html-italic">V. vinifera</span>. All collinear genes were labeled gray, while the collinear <span class="html-italic">KTI</span> gene pairs were labeled in red.</p>
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<p>Cis-regulatory element (CRE) analysis of <span class="html-italic">PyunKTI</span> genes family. The number of CREs in the promoter region of the <span class="html-italic">PyunKTI</span> genes. The number of each CRE was shown in the heatmap box, and white represents that there was no corresponding CRE. Different colors on the bar chart represent different types of CREs in the <span class="html-italic">PyunKTI</span> genes family.</p>
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<p>Expression profile of <span class="html-italic">PyunKTI</span> genes from <span class="html-italic">P. yunnanensis</span> with upright and inverted cuttings. (<b>A</b>) PCA analysis of the <span class="html-italic">PyunKTI</span> genes in <span class="html-italic">P. yunnanensis.</span> (<b>B</b>) Volcano plot analysis of the <span class="html-italic">PyunKTI</span> genes in <span class="html-italic">P. yunnanensis</span>. (<b>C</b>) Heatmap analysis showing the expression patterns and coexpressed relationships of each <span class="html-italic">KTI</span> gene.</p>
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<p>Inverted treatment increases the expression of <span class="html-italic">KTI</span> genes. (<b>A</b>–<b>C</b>) show the qPCR relative expression and transcriptome results of <span class="html-italic">PyunKTI16</span>, <span class="html-italic">PyunKTI18</span>, and <span class="html-italic">PyunKTI19</span>, respectively. JZ, JD, SZ, and SD denote July upright insertion, July inversion insertion, September upright insertion, and September inversion insertion, respectively. Pink represents the upright insertion results, green represents the inversion insertion results, and the broken line represents the transcriptome results.</p>
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<p><span class="html-italic">KTI</span> gene expression in the GEO database in the related transcriptome with <span class="html-italic">P. trichocarpa</span> as the reference gene. (<b>A</b>) NJ Phylogenetic tree of <span class="html-italic">P. yunnanensis</span> and <span class="html-italic">P. trichocarpa</span>. (<b>B</b>) GSE56864: Effect of Methyl Jasmonate on the poplar root transcriptome. 4Con and 8Con are the control roots; 3MeJA10 and 6MeJA10 are the Methyl Jasmonate treated roots. (<b>C</b>) GSE86960: A time series of autumn senescence leaves from <span class="html-italic">P. tremula</span>. Samples were collected from the growing season in July to the aging season in October. (<b>D</b>) GSE67697: Transcriptome analysis of poplar during leaf spot infection with <span class="html-italic">Sphaerulina</span> spp. Samples were collected at 0, 1, 3, 4, and 15 days after infection with the pathogen.</p>
Full article ">Figure 12
<p>The grouping relationship between the <span class="html-italic">KTI</span> gene of <span class="html-italic">P. yunnanensis</span> and the <span class="html-italic">KTI</span> gene of <span class="html-italic">P. trichocarpa</span> and the expression pattern of the <span class="html-italic">KTI</span> gene in various tissue parts of <span class="html-italic">P. trichocarpa</span>.</p>
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<p><span class="html-italic">KTI</span> gene expression in the transcriptome of drought-treated <span class="html-italic">P. trichocarpa</span> as a reference gene in the GEO database. (<b>A</b>) GSE97463: Differential gene expression analysis of drought-responsive sense and antisense genes in <span class="html-italic">Populus</span>. Sample name starting with c represents the control group, and sample name starting with s represents the drought treatment group. (<b>B</b>) GSE79401: RNA-seq of drought-treated <span class="html-italic">P. trichocarpa</span>. Samples were collected at 0, 5, and 7 days for the drought treatment.</p>
Full article ">
19 pages, 2525 KiB  
Article
Comparative Analysis of Embryonic Development and Antioxidant Stress Response in Hybrid Grouper (Epinephelus fuscoguttatus ♀ × E. lanceolatus ♂) with Different Ploidy Levels
by Haizhan Tang, Yang Li, Meng Zhang, Xin Fan, Jian Luo and Xin Wen
Fishes 2025, 10(1), 4; https://doi.org/10.3390/fishes10010004 - 26 Dec 2024
Viewed by 251
Abstract
Triploid fish sometimes grow faster and larger than diploids, making them valuable in aquaculture. Their underdeveloped gonads redirect energy from reproduction to muscle growth. This study compared embryonic development and antioxidant responses between allotriploid and hybrid diploid grouper (Epinephelus fuscoguttatus ♀ × [...] Read more.
Triploid fish sometimes grow faster and larger than diploids, making them valuable in aquaculture. Their underdeveloped gonads redirect energy from reproduction to muscle growth. This study compared embryonic development and antioxidant responses between allotriploid and hybrid diploid grouper (Epinephelus fuscoguttatus ♀ × E. lanceolatus ♂) after cold shock, aiming to support large-scale allotriploid production. The diploid group had a 99.08% fertilization rate and 82.87% hatching rate, while the triploid group had lower rates (95.71% fertilization, 39.63% hatching, 11.52% deformity). Triploids developed later, with higher incidences of abnormalities and mortality, especially in the gastrula and neuro-embryo stages. Triploid larvae exhibited shortened tails, abnormal yolk sacs, and impaired swimming. Flow cytometry showed triploids that had 1.55 times more DNA and larger red blood cells. Triploids had lower midgut trypsin and lipase levels than diploids (p < 0.05) but similar glucose, liver malondialdehyde, and total cholesterol levels (p > 0.05). However, they had higher liver and spleen lactate dehydrogenase, catalase, and alkaline phosphatase, along with lower spleen malondialdehyde and liver superoxide dismutase (p < 0.05). These findings offer insights into reducing mortality in allotriploid grouper aquaculture, aiding large-scale production efforts. Full article
(This article belongs to the Section Genetics and Biotechnology)
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Figure 1
<p>Control hybrid grouper diploid (<b>A</b>) and triploid embryo (<b>B</b>) chromosome spread.</p>
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<p>DNA content in diploid and triploid fertilized eggs. Note: There is a difference in nucleic acid levels between diploid and triploid grouper detection (3n ~ 1.5 × 2n).</p>
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<p>Differences in red blood cell size under different ploidy levels. Note: There is a difference in red blood cell size between diploid and triploid grouper at the level of 3n ~ 1.5 × 2n.</p>
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<p>The embryonic development stage of the hybrid grouper. Normal diploid at different developmental stages (<a href="#fishes-10-00004-f004" class="html-fig">Figure 4</a>, 1–26), and Abnormal situations during the developmental stage of triploid grouper (<a href="#fishes-10-00004-f004" class="html-fig">Figure 4</a>, 27–34). Note: 1, 2-cell; 2, 4-cell; 3, 8-cell; 4, 16-cell; 5, 32-cell; 6, 64-cell; 7, multi-cell; 8, morula; 9, late blastocyst stage; 10, early blastocyst stage; 11, early gastrula; 12, middle gastrula; 13, late gastrula; 14, embryo body stage; 15, closure of blastopore stage; 16, optic capsule stage; 17, muscle burl stage; 18, otocyst stage; 19, brain vesicle stage; 20, heart formation; 21, tail-bud stage; 22, crystal stage; 23, heart-beating stage; 24, pre-hatching stage; 25, hatching stage; 26, newly-hatched larvae; 27, undivided embryo; 28, abnormal embryo in the 8-cell stage; 29, abnormal embryo in the gastrula stage; 30, abnormal embryo in the neurula stage; 31, abnormal embryo in the hatching stage; 32–34, de-formed larvae from cold shock group.</p>
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<p>Levels of trypsin (<b>A</b>), lipase (<b>B</b>), and glucose (<b>C</b>) in allopolyploid grouper and Hulong hybrid grouper. The asterisks denote the statistical significance level: ***: <span class="html-italic">p</span> &lt; 0.001; ****; <span class="html-italic">p</span> &lt; 0.0001, and ns indicates no significant difference.</p>
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<p>Levels of lactate dehydrogenase (<b>A</b>), total cholesterol (<b>B</b>), and malondialdehyde (<b>C</b>) in allopolyploid grouper and Hulong hybrid grouper. The asterisks denote the statistical significance level: *: <span class="html-italic">p</span> &lt; 0.05; **: <span class="html-italic">p</span> &lt; 0.01; ***: <span class="html-italic">p</span> &lt; 0.001, and ns indicates no significant difference.</p>
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<p>Levels of alkaline phosphatase (<b>A</b>), superoxide dismutase (<b>B</b>), and catalase (<b>C</b>) in allopolyploid grouper and Hulong hybrid grouper. The asterisks denote the statistical significance level: **: <span class="html-italic">p</span> &lt; 0.01; ***: <span class="html-italic">p</span> &lt; 0.001; ****; <span class="html-italic">p</span> &lt; 0.0001, and ns indicates no significant difference. T is triploid, D is diploid.</p>
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11 pages, 1281 KiB  
Article
Branched-Chain Amino Acid (BCAA) Oligopeptide Determination from Whey Proteins: Preparation, Peptide Profiles, and Anti-Fatigue Activity
by Qiong Zhu, Renjie Zhou, Xiping Zhu, Xiangru Lu, Binli Ai, Qibin Zhuang and Chun Cui
Foods 2025, 14(1), 32; https://doi.org/10.3390/foods14010032 - 26 Dec 2024
Viewed by 308
Abstract
Whey proteins have anti-fatigue activity, but there are few studies that have reported the ameliorative effects of branched-chain amino acid (BCAA) oligopeptides from whey proteins on fatigue in mice. The purposes of this study were to establish a process for the preparation of [...] Read more.
Whey proteins have anti-fatigue activity, but there are few studies that have reported the ameliorative effects of branched-chain amino acid (BCAA) oligopeptides from whey proteins on fatigue in mice. The purposes of this study were to establish a process for the preparation of BCAA oligopeptides from whey protein and to investigate the anti-fatigue activity of BCAA oligopeptides. Whey proteins were hydrolyzed by trypsin and flavourzyme and purified by ethanol precipitation and reversed-phase high performance liquid chromatography (RP-HPLC). Fraction D’ was found to contain the highest content of BCAAs and a high proportion of low-molecular-weight peptides (<1 kDa; content: 81.48%). Subsequently, mass spectrometry identified 15 BCAA oligopeptides in Fraction D’, including three dipeptides, six tripeptides, two tetrapeptides, and four pentapeptides. In addition, animal experiments showed that BCAA oligopeptides significantly prolonged the residence time on the rod and swimming time of mice. Further studies showed that BCAA oligopeptides remarkably reduced serotonin (5-hydroxytryptamine, 5-HT) synthesis in the brain by down-regulating the plasma-free tryptophan (F-Trp)/BCAA ratio, thereby alleviating fatigue. Therefore, BCAA oligopeptides can be used as an auxiliary functional dietary molecule in functional products to exert anti-fatigue activity by regulating 5-HT synthesis. Full article
(This article belongs to the Section Food Physics and (Bio)Chemistry)
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Figure 1
<p>BCAA content in WPHs-TF and its derivatives (Fraction A, B, C, D, and D’). (<b>A</b>) TAA content; (<b>B</b>) content in peptides; (<b>C</b>) FAA content. Data are expressed as mean ± standard deviation (<span class="html-italic">n</span> = 3), and different letters within the same fill color bar indicate a significant difference (<span class="html-italic">p</span> &lt; 0.05).</p>
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<p>Effects of BCAA oligopeptides on behavioral experiments in mice. Data are expressed as mean ± standard deviation (<span class="html-italic">n</span> = 10), and different letters within the same fill color bar indicate a significant difference (<span class="html-italic">p</span> &lt; 0.05). (NC: normal control group; WP: whey protein group; TF: WPHs-TF group; BCAAPH: BCAA oligopeptide high-dose group; BCAAPM: BCAA oligopeptide medium-dose group; BCAAPL: BCAA oligopeptide low-dose group).</p>
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<p>Effects of BCAA oligopeptides on biochemical indexes. The bar graph represents the plasma Trp/BCAA ratio, with the y-axis on the left, and the line graph represents the brain 5-HT level, with the y-axis on the right. Data are expressed as mean ± standard deviation (<span class="html-italic">n</span> = 10), and different letters within the same fill color bar indicate a significant difference (<span class="html-italic">p</span> &lt; 0.05).</p>
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15 pages, 1841 KiB  
Article
Comparative Exploration of Antioxidant Properties of Alcalase- and Trypsin-Hydrolyzed Porcine By-Products and Their Classification for Industrial Use
by Jun Hwang, Woo-Young Son, Eun Ju Jeong, Kyeong-Soo Kim, Eui-Cheol Shin, Dong-Heon Song, Kyung-Woo Lee and Hyun-Wook Kim
Appl. Sci. 2025, 15(1), 47; https://doi.org/10.3390/app15010047 - 25 Dec 2024
Viewed by 341
Abstract
Porcine by-products have garnered attention as an excellent material for producing antioxidant peptides; however, understanding the antioxidant characteristics of protein hydrolyzates derived from specific parts remains limited. In this study, we compared the antioxidant properties of protein hydrolyzates derived from major porcine organs [...] Read more.
Porcine by-products have garnered attention as an excellent material for producing antioxidant peptides; however, understanding the antioxidant characteristics of protein hydrolyzates derived from specific parts remains limited. In this study, we compared the antioxidant properties of protein hydrolyzates derived from major porcine organs (heart, kidney, spleen, liver, and lung) and performed classification based on their antioxidative potential. Their chemical composition exhibited significant variations, with a high protein content ranging from 15.90 to 20.30 g/100 g. Alcalase achieved higher hydrolysis efficiency than trypsin, which induced limited degradation of some proteins, such as porcine serum albumin. The hydrolyzates exhibited superior radical scavenging activities compared to the raw materials, although their reducing power remained unaffected or, in some instances, decreased. Hierarchical and k-mean cluster analyses revealed distinct antioxidant profiles and Alcalase-hydrolyzed kidney and trypsin-hydrolyzed lung hydrolyzates were deemed the most promising candidates, with strong radical scavenging activities and reducing power. Our findings indicate that, even when processed in bulk rather than being obtained from specific parts, porcine by-products can produce hydrolyzates rich in antioxidant peptides through enzymatic hydrolysis. However, selectively processing porcine kidneys with Alcalase and lungs with trypsin is recommended to produce premium products with enhanced and balanced antioxidant properties. Full article
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Figure 1
<p>Extractable protein (<b>a</b>) of porcine organs and degree of hydrolysis (<b>b</b>) of their hydrolyzates. H, heart; K, kidney; S, spleen; V, liver; L, lung. Each error bar indicates the standard deviation (<span class="html-italic">n</span> = 3). a–h means with the same letter are not significantly different (<span class="html-italic">p</span> ≥ 0.05).</p>
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<p>A representative photo of protein SDS-PAGE (5% stacking gel and 12% separating gel) of Alcalase- and trypsin-medicated protein hydrolyzates from pork organs. PM, standard protein market; H, heart; K, kidney; S, spleen; V, liver; L, lung; A-, Alcalase-hydrolyzed; T-, trypsin-hydrolyzed. The arrows indicate the intact protein bands after hydrolysis.</p>
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<p>DPPH radical scavenging activity (<b>a</b>–<b>e</b>) and DPPH radical IC<sub>50</sub> value (<b>f</b>) of Alcalase- and trypsin-medicated protein hydrolyzates from porcine organs. H, heart; K, kidney; S, spleen; V, liver; L, lung. Each error bar indicates the standard deviation (<span class="html-italic">n</span> = 3). a–c means with the same letter within the result for IC<sub>50</sub> value are not significantly different (<span class="html-italic">p</span> ≥ 0.05).</p>
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<p>ABTS radical scavenging activity (<b>a</b>–<b>e</b>) and ABTS radical IC<sub>50</sub> value (<b>f</b>) of Alcalase- and trypsin-medicated protein hydrolyzates from porcine organs. H, heart; K, kidney; S, spleen; V, liver; L, lung. Each error bar indicates the standard deviation (<span class="html-italic">n</span> = 3). a–g means with the same letter within the result for IC<sub>50</sub> value are not significantly different (<span class="html-italic">p</span> ≥ 0.05).</p>
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<p>Hydroxyl radical scavenging activity (<b>a</b>–<b>e</b>) and OH radical IC<sub>50</sub> value (<b>f</b>) of Alcalase- and trypsin-medicated protein hydrolyzates from porcine organs. H, heart; K, kidney; S, spleen; V, liver; L, lung. Each error bar indicates the standard deviation (<span class="html-italic">n</span> = 3). a–i means with the same letter within the result for IC<sub>50</sub> values are not significantly different (<span class="html-italic">p</span> ≥ 0.05).</p>
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<p>Reducing power of Alcalase- and trypsin-medicated protein hydrolyzates (1 mg/mL) from porcine organs. H, heart; K, kidney; S, spleen; V, liver; L, lung. Each error bar indicates the standard deviation (<span class="html-italic">n</span> = 3). a–g means with the same letter are not significantly different (<span class="html-italic">p</span> ≥ 0.05).</p>
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<p>Dendrogram on antioxidant property-related variables (DPPH, ABTS, and OH radical IC<sub>50</sub> values and reducing power) of Alcalase- and trypsin-medicated protein hydrolyzates from pork by-products. H, heart; K, kidney; S, spleen; V, liver; L, lung; A-, Alcalase-mediated hydrolyzate; T-, trypsin-mediated hydrolyzate.</p>
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17 pages, 3608 KiB  
Article
Preparation of Antioxidant Peptides from Chicken Bone Proteins and the Influence of Their Compositional Characteristics on Antioxidant Activity
by Yitong Jin, Peng Zhou, Chengzhi Zhu, Yanan Liu and Zhijun Zhao
Foods 2024, 13(24), 4171; https://doi.org/10.3390/foods13244171 - 23 Dec 2024
Viewed by 408
Abstract
Antioxidants play an important role in maintaining health and enhancing food stability by neutralizing free radicals. This study aimed to extract antioxidant peptides from white-feathered chicken bones through enzymatic hydrolysis, optimize the enzymatic hydrolysis conditions, and further investigate the relevance between the amino [...] Read more.
Antioxidants play an important role in maintaining health and enhancing food stability by neutralizing free radicals. This study aimed to extract antioxidant peptides from white-feathered chicken bones through enzymatic hydrolysis, optimize the enzymatic hydrolysis conditions, and further investigate the relevance between the amino acid composition, molecular weight, and antioxidant activity of the resulting chicken bone hydrolysate. Alcalase was the most effective enzyme for hydrolyzing cooked chicken bones compared with papain, pepsin, and trypsin, yielding hydrolysates with the highest DH and ABTS radical scavenging activity. The enzymatic conditions were optimized using single-factor experiments and response surface methodology (RSM). The optimal conditions were a substrate concentration of 10%, an enzyme-substrate ratio of 502.75 U/g, a hydrolysis temperature of 48.48 °C, and a hydrolysis time of 1.13 h. Under these conditions, the ABTS radical scavenging activity reached 83.43%. Amino acid composition analysis revealed that peptides from chicken bones were rich in glycine, glutamic acid, alanine, proline, and aspartic acid, which were associated with antioxidant functions. Among these peptides, those with a molecular weight below 3 kDa exhibited the highest antioxidant effects through membrane filtration. In summary, chicken bone hydrolysate exhibits potent antioxidant activity, nominating them for potential application as natural antioxidants investible in novel functional foods and pharmaceuticals. Full article
(This article belongs to the Section Food Engineering and Technology)
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<p>Degree of hydrolysis (DH) of chicken bone proteins (<b>a</b>) and ABTS radical scavenging activity of chicken bone hydrolysates treated with alcalase, papain, pepsin, and trypsin (<b>b</b>). * indicates <span class="html-italic">p</span> &lt; 0.05 and *** indicates <span class="html-italic">p</span> &lt; 0.001 between raw and cooked chicken bones within the same protease treatment. Different lowercase letters indicate significant differences (<span class="html-italic">p</span> &lt; 0.05) among different protease treatments for the same chicken bone.</p>
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<p>SDS-PAGE profiles of chicken bone proteins in the native form (lane Control) and after hydrolysis with pepsin (lane 1), trypsin (lane 2), alcalase (lane 3), and papain (lane 4) under optimal hydrolysis conditions for each enzyme.</p>
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<p>Effect of different substrate concentrations (<b>a</b>), enzyme-ratios (<b>b</b>), temperature (<b>c</b>), and hydrolysis time (<b>d</b>) on ABTS radical scavenging activity. Values without the same letter in each column have significant differences (<span class="html-italic">p</span> &lt; 0.05).</p>
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<p>Response surface plots showing a correlation between (<b>a</b>) enzyme-substrate ratio and hydrolysis temperature, (<b>b</b>) hydrolysis temperature and hydrolysis time, and (<b>c</b>) enzyme-substrate ratio and hydrolysis time on ABTS radical scavenging of CBH.</p>
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<p>ABTS radical scavenging activity (<b>a</b>), hydroxyl radical scavenging activity (<b>b</b>), reducing power (<b>c</b>), and Fe<sup>2+</sup> chelating capacity (<b>d</b>) of CBH at different concentrations were determined separately, with ascorbic acid (VC) at a concentration of 10 mg/mL used as a positive control. CBH obtained under the optimal single-factor experiment was named CBH-1, while the one optimized using RSM was named CBH-2. The results were expressed as the mean ± standard deviation of three determinations. Values with different letters differ significantly (<span class="html-italic">p</span> &lt; 0.05).</p>
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<p>Amino acid composition of CBH-2.</p>
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<p>Molecular weight distribution of peptides of CBH-2.</p>
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<p>(<b>a</b>) ABTS radical scavenging, (<b>b</b>) hydroxyl radical scavenging, (<b>c</b>) reducing power, and (<b>d</b>) Fe<sup>2+</sup> chelating capacity of CBH-2 of different concentrations and molecular weights.</p>
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17 pages, 708 KiB  
Article
Bulgarian Cowpea Landraces—Agrobiological and Morphological Characteristics and Seed Biochemical Composition
by Tsvetelina Stoilova and Lyudmila Simova-Stoilova
Agriculture 2024, 14(12), 2339; https://doi.org/10.3390/agriculture14122339 - 20 Dec 2024
Viewed by 305
Abstract
To face climate change, searching for alternative crops resistant to drought and heat stress becomes necessary, along with efficient germplasm management. Old landraces well-adapted to local climatic conditions, pests, and pathogens could be used as a source of desired traits. Cowpea (Vigna [...] Read more.
To face climate change, searching for alternative crops resistant to drought and heat stress becomes necessary, along with efficient germplasm management. Old landraces well-adapted to local climatic conditions, pests, and pathogens could be used as a source of desired traits. Cowpea (Vigna unguiculata L. Walp.), grown mainly in the tropical and subtropical areas, presents superior drought and heat stress adaptation compared to other legumes. Limited information is available on field performance and nutrient qualities of cowpea landraces originating from southern Bulgaria. The aim of the present study was to compare in field conditions and their impacts on plant performance, yield, and the seed biochemical composition of Bulgarian cowpea accessions, including fourteen landraces and one variety. Higher-yielding, earlier-maturing accessions were discerned. Among the landraces studied, B1E0103 was the most productive under the agro-climatic conditions in Sadovo, central Bulgaria; BOE0035 had the earliest maturity. The seed moisture content was 11.5 ± 0.3%, and the energy value was 347.9 ± 1.2 kcal/100 g. The crude protein content varied from 22.5 to 27%, the lipids were 1.6–2.55%, the carbohydrates were 56.5–61.4%, ash was 3.8–4.3%, dietary fibers were 3.1–4.5%, tannins were 16–22%, phenols were 1.3–4.4 mg/g, flavonoids were 1.85–3.7 mg/g, and the trypsin-inhibiting activity was 0.7–2.5 units/mg FW, with the lowest in BOE0010, the variety “Hrisi”, and B1E0103 and the highest in B0E0035, A9E1230, and A8E0562. Landraces are promising genetic material for future research and breeding purposes. Full article
(This article belongs to the Section Crop Genetics, Genomics and Breeding)
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Figure 1
<p>(<b>a</b>) Monthly average temperature (°C) in Sadovo during the experimental period. (<b>b</b>) Monthly amount of rainfall (mm) during cowpea vegetation cycle for years 2021, 2022, and 2023.</p>
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<p>Phenological observations of cowpea genotypes.</p>
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<p>Dendrogram illustrating similarities among 15 cowpea accessions.</p>
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17 pages, 1741 KiB  
Article
Dietary Probiotic Rhodopseudomonas palustris Formulation Improves Growth Performance, Muscle Composition, Digestive Enzyme Activity, Non-Specific Immunity and Disease Resistance of Juvenile Ivory Shell (Babylonia areolata)
by Xiao Wang, Yao-Peng Lu, Ze-Long Zhang, Pei-Hua Zheng, Jun-Tao Li, Xiu-Xia Zhang, Jia-Jun Li, Heng-Mei Wu and Jian-An Xian
Fishes 2024, 9(12), 522; https://doi.org/10.3390/fishes9120522 - 20 Dec 2024
Viewed by 385
Abstract
Rhodopseudomonas palustris (RP) are known anaerobic bacteria with probiotic properties containing several bioactive compounds and enzymes that benefit aquatic animals. However, studies on the use of RP on aquatic animal species are limited. This study investigated the effects of dietary supplementation with RP [...] Read more.
Rhodopseudomonas palustris (RP) are known anaerobic bacteria with probiotic properties containing several bioactive compounds and enzymes that benefit aquatic animals. However, studies on the use of RP on aquatic animal species are limited. This study investigated the effects of dietary supplementation with RP formulation on the growth, non-specific immunity, and disease resistance of juvenile ivory shells (Babylonia areolata). The experiment was conducted for 8 weeks, with B. areolata fed a control diet (RP0) and four diets containing four different RP formulations, with doses of 1 (RP1), 5 (RP2), 10 (RP3), and 20 (RP4) g/kg, respectively. Higher levels of R. palustris in the formulation led to increased final weight, weight gain, and specific growth rate in B. areolata. The crude protein content was significantly higher in the RP4 group compared to the RP0 group. However, there was no significant difference in the crude lipid content. Higher levels of R. palustris in the RP4 formulation group increased the trypsin and lipase activities. Dietary supplementation with RP significantly increased the total antioxidant capacity, superoxide dismutase, and catalase activities and decreased the malondialdehyde content in B. areolata. Acid phosphatase and alkaline phosphatase activities were significantly increased in the RP4 group compared to the RP0 group. Dietary RP significantly increased the expression levels of antioxidant-related (superoxide dismutase, Cu/Zn-superoxide dismutase, glutathione S-transferase A-like, ferritin) and immune-related (acid phosphatase, cytochrome c) genes. Higher levels of R. palustris in the formulations RP3 and RP4 increased the survival rate of B. areolata challenged with Vibrio parahaemolyticus. These findings indicate that R. palustris preparation could improve growth performance, muscle composition, and digestive capacity and may act as an immune booster for preventing disease in B. areolata. Full article
(This article belongs to the Special Issue Nutrition and Immune Responses in Aquatic Animals)
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<p>The effects of diets supplemented with various levels of RP for 8 weeks on the digestive enzyme activities of <span class="html-italic">B. areolata</span>, including trypsin (<b>A</b>), lipase (<b>B</b>), and α-amylase (<b>C</b>). Values that do not share a common superscript are significantly different (<span class="html-italic">p</span> &lt; 0.05). Levene’s test/Shapiro–Wilk test: the homogeneity of variance and normality for data. Linear/quadratic/cubic: orthogonal polynomial contrasts.</p>
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<p>Hepatopancreas oxidative stress biomarkers, including SOD (<b>A</b>), CAT (<b>B</b>), T-AOC (<b>C</b>), and MDA (<b>D</b>) of <span class="html-italic">B. areolata</span>-fed diets supplemented with various levels of RP for 8 weeks. Values that do not share a common superscript are significantly different (<span class="html-italic">p</span> &lt; 0.05). Levene’s test/Shapiro–Wilk test: the homogeneity of variance and normality for data. Linear/quadratic/cubic: orthogonal polynomial contrasts.</p>
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<p>Hepatopancreas immunological parameters, including ACP (<b>A</b>) and AKP (<b>B</b>) of <span class="html-italic">B. areolata</span> fed diets supplemented with various levels of RP for 8 weeks. Values that do not share a common letter are significantly different (<span class="html-italic">p</span> &lt; 0.05). Levene’s test/Shapiro–Wilk test: the homogeneity of variance and normality for data. Linear/quadratic/cubic: orthogonal polynomial contrasts.</p>
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<p>The effects of diets supplemented with various concentration levels of RP for 8 weeks on the relative expression levels of antioxidant-related genes in the hepatopancreas of <span class="html-italic">B. areolata</span>. The different letters above each bar denote the significant difference between treatments (<span class="html-italic">p</span> &lt; 0.05).</p>
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<p>The effects of 8 weeks of dietary supplementation with various concentration levels of RP on the relative expression levels of immune-related genes in the hepatopancreas of <span class="html-italic">B. areolata</span>. The different letters above each bar denote the significant differences between treatments (<span class="html-italic">p</span> &lt; 0.05).</p>
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<p>The effects of dietary RP concentration levels on the survival after <span class="html-italic">V. parahaemolyticus</span> infection of <span class="html-italic">B. areolata</span> at 96 h. Values that do not share a common letter are significantly different (<span class="html-italic">p</span> &lt; 0.05).</p>
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<p>The analytical results of regression curve for some representative and significant parameters. (<b>A</b>): The regression analysis between WGR and dietary RP level; (<b>B</b>): The regression analysis between SGR and dietary RP level; (<b>C</b>): The regression analysis between T-AOC and dietary RP level; (<b>D</b>): The regression analysis between CAT and dietary RP level; (<b>E</b>): The regression analysis between ACP and dietary RP level; (<b>F</b>): The regression analysis between trypsin and dietary RP level. Values that do not share a common letter are significantly different (<span class="html-italic">p</span> &lt; 0.05).</p>
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22 pages, 5573 KiB  
Article
Preparation and Characterization of Calcium-Chelated Sea Cucumber Ovum Hydrolysate and the Inhibitory Effect on α-Amylase
by Xu Yan, Fengjiao Fan, Zijin Qin, Lijuan Zhang, Shuang Guan, Shiying Han, Xiufang Dong, Hui Chen, Zhe Xu and Tingting Li
Foods 2024, 13(24), 4119; https://doi.org/10.3390/foods13244119 - 20 Dec 2024
Viewed by 555
Abstract
α-amylase can effectively inhibit the activity of digestive enzymes and alter nutrient absorption. The impact of ovum hydrolysates of sea cucumbers on α-amylase activity was investigated in this study. The protein hydrolysates generated using different proteases (pepsin, trypsin, and neutral protease) and molecular [...] Read more.
α-amylase can effectively inhibit the activity of digestive enzymes and alter nutrient absorption. The impact of ovum hydrolysates of sea cucumbers on α-amylase activity was investigated in this study. The protein hydrolysates generated using different proteases (pepsin, trypsin, and neutral protease) and molecular weights (less than 3000 and more than 3000) were investigated. The results showed that all three different hydrolysates demonstrated calcium-chelating activity and induced a fluorescence-quenching effect on α-amylase. The sea cucumber ovum hydrolysate with a molecular weight of less than 3000 Da, isolated using trypsin, showed the most effective inhibitory effect on α-amylase, with an inhibition rate of 53.9%, and the inhibition type was identified as mixed forms of inhibition. In conclusion, the generation and utilization of protein hydrolysates from sea cucumber ovum as a functional food ingredient could be a potential approach to add value to low-cost seafood by-products. Full article
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Graphical abstract

Graphical abstract
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<p>Molecular weight distribution curve and percentage of sea cucumber ovum hydrolysate: (<b>A</b>) SCOPH, (<b>B</b>) SCOTH, and (<b>C</b>) SCONPH.</p>
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<p>Preparation and properties of calcium chelate from sea cucumber ovum hydrolysate. (<b>A<sub>1</sub></b>–<b>A<sub>3</sub></b>): UV absorption spectra analysis of hydrolysates and corresponding hydrolysate-calcium complexes obtained by hydrolysis of sea cucumber ovum with three enzymes in the 190–800 nm range: (<b>A<sub>1</sub></b>) SCOPH, (<b>A<sub>2</sub></b>) SCOTH, and (<b>A<sub>3</sub></b>) SCONPH. (<b>B<sub>1</sub></b>–<b>B<sub>3</sub></b>): Fluorescence spectra of the hydrolysates obtained from the hydrolysis of sea cucumber ovum by three enzymes and different concentrations of CaCl<sub>2</sub> in the excitation wavelength range of 295 nm and emission wavelength of 310–500 nm: (<b>B<sub>1</sub></b>) SCOPH, (<b>B<sub>2</sub></b>) SCOTH, and (<b>B<sub>3</sub></b>) SCONPH. (<b>C<sub>1</sub></b>–<b>C<sub>3</sub></b>): FT-IR analysis of the hydrolysate and the corresponding hydrolysate–calcium complexes obtained from the hydrolysis of sea cucumber ovum by three enzymes in the range of 4000–400 cm<sup>−1</sup>: (<b>C<sub>1</sub></b>) SCOPH, (<b>C<sub>2</sub></b>) SCOTH, and (<b>C<sub>3</sub></b>) SCONPH. (<b>D</b>): Particle size variation in sea cucumber ovum hydrolysates and their calcium chelates. (<b>E<sub>1</sub></b>–<b>E<sub>3</sub></b>): Circular dichroism spectra and secondary structure content of sea cucumber ovum hydrolysates and their calcium complexes: (<b>E<sub>1</sub></b>) SCOPH, (<b>E<sub>2</sub></b>) SCOTH, and (<b>E<sub>3</sub></b>) SCONPH. (<b>F<sub>1</sub></b>–<b>F<sub>3</sub></b>): Changes in the secondary structure of sea cucumber ovum hydrolysates and their calcium complexes during simulated gastro ovum digestion: (<b>F<sub>1</sub></b>) SCOPH, (<b>F<sub>2</sub></b>) SCOTH, and (<b>F<sub>3</sub></b>) SCONPH. (<b>G</b>): Calcium-binding capacity of hydrolysates obtained by enzymatic digestion of sea cucumber ovum by different proteases. Different letters indicate significant differences (<span class="html-italic">p</span> &lt; 0.05).</p>
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<p>Preparation and properties of calcium chelate from sea cucumber ovum hydrolysate. (<b>A<sub>1</sub></b>–<b>A<sub>3</sub></b>): UV absorption spectra analysis of hydrolysates and corresponding hydrolysate-calcium complexes obtained by hydrolysis of sea cucumber ovum with three enzymes in the 190–800 nm range: (<b>A<sub>1</sub></b>) SCOPH, (<b>A<sub>2</sub></b>) SCOTH, and (<b>A<sub>3</sub></b>) SCONPH. (<b>B<sub>1</sub></b>–<b>B<sub>3</sub></b>): Fluorescence spectra of the hydrolysates obtained from the hydrolysis of sea cucumber ovum by three enzymes and different concentrations of CaCl<sub>2</sub> in the excitation wavelength range of 295 nm and emission wavelength of 310–500 nm: (<b>B<sub>1</sub></b>) SCOPH, (<b>B<sub>2</sub></b>) SCOTH, and (<b>B<sub>3</sub></b>) SCONPH. (<b>C<sub>1</sub></b>–<b>C<sub>3</sub></b>): FT-IR analysis of the hydrolysate and the corresponding hydrolysate–calcium complexes obtained from the hydrolysis of sea cucumber ovum by three enzymes in the range of 4000–400 cm<sup>−1</sup>: (<b>C<sub>1</sub></b>) SCOPH, (<b>C<sub>2</sub></b>) SCOTH, and (<b>C<sub>3</sub></b>) SCONPH. (<b>D</b>): Particle size variation in sea cucumber ovum hydrolysates and their calcium chelates. (<b>E<sub>1</sub></b>–<b>E<sub>3</sub></b>): Circular dichroism spectra and secondary structure content of sea cucumber ovum hydrolysates and their calcium complexes: (<b>E<sub>1</sub></b>) SCOPH, (<b>E<sub>2</sub></b>) SCOTH, and (<b>E<sub>3</sub></b>) SCONPH. (<b>F<sub>1</sub></b>–<b>F<sub>3</sub></b>): Changes in the secondary structure of sea cucumber ovum hydrolysates and their calcium complexes during simulated gastro ovum digestion: (<b>F<sub>1</sub></b>) SCOPH, (<b>F<sub>2</sub></b>) SCOTH, and (<b>F<sub>3</sub></b>) SCONPH. (<b>G</b>): Calcium-binding capacity of hydrolysates obtained by enzymatic digestion of sea cucumber ovum by different proteases. Different letters indicate significant differences (<span class="html-italic">p</span> &lt; 0.05).</p>
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<p>Preparation and properties of calcium chelate from sea cucumber ovum hydrolysate. (<b>A<sub>1</sub></b>–<b>A<sub>3</sub></b>): UV absorption spectra analysis of hydrolysates and corresponding hydrolysate-calcium complexes obtained by hydrolysis of sea cucumber ovum with three enzymes in the 190–800 nm range: (<b>A<sub>1</sub></b>) SCOPH, (<b>A<sub>2</sub></b>) SCOTH, and (<b>A<sub>3</sub></b>) SCONPH. (<b>B<sub>1</sub></b>–<b>B<sub>3</sub></b>): Fluorescence spectra of the hydrolysates obtained from the hydrolysis of sea cucumber ovum by three enzymes and different concentrations of CaCl<sub>2</sub> in the excitation wavelength range of 295 nm and emission wavelength of 310–500 nm: (<b>B<sub>1</sub></b>) SCOPH, (<b>B<sub>2</sub></b>) SCOTH, and (<b>B<sub>3</sub></b>) SCONPH. (<b>C<sub>1</sub></b>–<b>C<sub>3</sub></b>): FT-IR analysis of the hydrolysate and the corresponding hydrolysate–calcium complexes obtained from the hydrolysis of sea cucumber ovum by three enzymes in the range of 4000–400 cm<sup>−1</sup>: (<b>C<sub>1</sub></b>) SCOPH, (<b>C<sub>2</sub></b>) SCOTH, and (<b>C<sub>3</sub></b>) SCONPH. (<b>D</b>): Particle size variation in sea cucumber ovum hydrolysates and their calcium chelates. (<b>E<sub>1</sub></b>–<b>E<sub>3</sub></b>): Circular dichroism spectra and secondary structure content of sea cucumber ovum hydrolysates and their calcium complexes: (<b>E<sub>1</sub></b>) SCOPH, (<b>E<sub>2</sub></b>) SCOTH, and (<b>E<sub>3</sub></b>) SCONPH. (<b>F<sub>1</sub></b>–<b>F<sub>3</sub></b>): Changes in the secondary structure of sea cucumber ovum hydrolysates and their calcium complexes during simulated gastro ovum digestion: (<b>F<sub>1</sub></b>) SCOPH, (<b>F<sub>2</sub></b>) SCOTH, and (<b>F<sub>3</sub></b>) SCONPH. (<b>G</b>): Calcium-binding capacity of hydrolysates obtained by enzymatic digestion of sea cucumber ovum by different proteases. Different letters indicate significant differences (<span class="html-italic">p</span> &lt; 0.05).</p>
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<p>Effect of sea cucumber ovum hydrolysate on α-amylase inhibitory activity. (<b>A</b>) The change in inhibition rate with peptide concentration. (<b>B</b>) Changes in inhibition rate during simulated digestion. (<b>C<sub>1</sub></b>–<b>C<sub>3</sub></b>) Effect of different protease hydrolysate concentrations on the secondary structure content of α-amylase: (<b>C<sub>1</sub></b>) SCOPH, (<b>C<sub>2</sub></b>) SCOTH, (<b>C<sub>3</sub></b>) SCONPH, (<b>C<sub>4</sub></b>) SH, and (<b>C<sub>5</sub></b>) LH. (<b>D<sub>1</sub></b>–<b>D<sub>3</sub></b>) Effect of hydrolysate concentrations of different protease hydrolysates on α-amylase particle size: (<b>D<sub>1</sub></b>) SCOPH, (<b>D<sub>2</sub></b>) SCOTH, (<b>D<sub>3</sub></b>) SCONPH, (<b>D<sub>4</sub></b>) SH, and (<b>D<sub>5</sub></b>) LH. Different letters indicate significant differences (<span class="html-italic">p</span> &lt; 0.05).</p>
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<p>Effect of sea cucumber ovum hydrolysate on α-amylase inhibitory activity. (<b>A</b>) The change in inhibition rate with peptide concentration. (<b>B</b>) Changes in inhibition rate during simulated digestion. (<b>C<sub>1</sub></b>–<b>C<sub>3</sub></b>) Effect of different protease hydrolysate concentrations on the secondary structure content of α-amylase: (<b>C<sub>1</sub></b>) SCOPH, (<b>C<sub>2</sub></b>) SCOTH, (<b>C<sub>3</sub></b>) SCONPH, (<b>C<sub>4</sub></b>) SH, and (<b>C<sub>5</sub></b>) LH. (<b>D<sub>1</sub></b>–<b>D<sub>3</sub></b>) Effect of hydrolysate concentrations of different protease hydrolysates on α-amylase particle size: (<b>D<sub>1</sub></b>) SCOPH, (<b>D<sub>2</sub></b>) SCOTH, (<b>D<sub>3</sub></b>) SCONPH, (<b>D<sub>4</sub></b>) SH, and (<b>D<sub>5</sub></b>) LH. Different letters indicate significant differences (<span class="html-italic">p</span> &lt; 0.05).</p>
Full article ">Figure 3 Cont.
<p>Effect of sea cucumber ovum hydrolysate on α-amylase inhibitory activity. (<b>A</b>) The change in inhibition rate with peptide concentration. (<b>B</b>) Changes in inhibition rate during simulated digestion. (<b>C<sub>1</sub></b>–<b>C<sub>3</sub></b>) Effect of different protease hydrolysate concentrations on the secondary structure content of α-amylase: (<b>C<sub>1</sub></b>) SCOPH, (<b>C<sub>2</sub></b>) SCOTH, (<b>C<sub>3</sub></b>) SCONPH, (<b>C<sub>4</sub></b>) SH, and (<b>C<sub>5</sub></b>) LH. (<b>D<sub>1</sub></b>–<b>D<sub>3</sub></b>) Effect of hydrolysate concentrations of different protease hydrolysates on α-amylase particle size: (<b>D<sub>1</sub></b>) SCOPH, (<b>D<sub>2</sub></b>) SCOTH, (<b>D<sub>3</sub></b>) SCONPH, (<b>D<sub>4</sub></b>) SH, and (<b>D<sub>5</sub></b>) LH. Different letters indicate significant differences (<span class="html-italic">p</span> &lt; 0.05).</p>
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<p>Fluorescence spectra of α-amylase with sea cucumber ovum digests at different concentrations: (<b>A<sub>1</sub></b>,<b>B<sub>1</sub></b>,<b>C<sub>1</sub></b>,<b>D<sub>1</sub></b>,<b>E<sub>1</sub></b>) 298 K, (<b>A<sub>2</sub></b>,<b>B<sub>2</sub></b>,<b>C<sub>2</sub></b>,<b>D<sub>2</sub></b>,<b>E<sub>2</sub></b>) 308 K, (<b>A<sub>3</sub></b>,<b>B<sub>3</sub></b>,<b>C<sub>3</sub></b>,<b>D<sub>3</sub></b>,<b>E<sub>3</sub></b>) 318 K, and (<b>A<sub>4</sub></b>,<b>B<sub>4</sub></b>,<b>C<sub>4</sub></b>,<b>D<sub>4</sub></b>,<b>E<sub>4</sub></b>) Stern–Volmer of sea cucumber ovum digests inducing intrinsic fluorescence quenching of α-amylase at different temperatures.</p>
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<p>Fluorescence spectra of α-amylase with sea cucumber ovum digests at different concentrations: (<b>A<sub>1</sub></b>,<b>B<sub>1</sub></b>,<b>C<sub>1</sub></b>,<b>D<sub>1</sub></b>,<b>E<sub>1</sub></b>) 298 K, (<b>A<sub>2</sub></b>,<b>B<sub>2</sub></b>,<b>C<sub>2</sub></b>,<b>D<sub>2</sub></b>,<b>E<sub>2</sub></b>) 308 K, (<b>A<sub>3</sub></b>,<b>B<sub>3</sub></b>,<b>C<sub>3</sub></b>,<b>D<sub>3</sub></b>,<b>E<sub>3</sub></b>) 318 K, and (<b>A<sub>4</sub></b>,<b>B<sub>4</sub></b>,<b>C<sub>4</sub></b>,<b>D<sub>4</sub></b>,<b>E<sub>4</sub></b>) Stern–Volmer of sea cucumber ovum digests inducing intrinsic fluorescence quenching of α-amylase at different temperatures.</p>
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<p>Fluorescence spectra of α-amylase with sea cucumber ovum digests at different concentrations: (<b>A<sub>1</sub></b>,<b>B<sub>1</sub></b>,<b>C<sub>1</sub></b>,<b>D<sub>1</sub></b>,<b>E<sub>1</sub></b>) 298 K, (<b>A<sub>2</sub></b>,<b>B<sub>2</sub></b>,<b>C<sub>2</sub></b>,<b>D<sub>2</sub></b>,<b>E<sub>2</sub></b>) 308 K, (<b>A<sub>3</sub></b>,<b>B<sub>3</sub></b>,<b>C<sub>3</sub></b>,<b>D<sub>3</sub></b>,<b>E<sub>3</sub></b>) 318 K, and (<b>A<sub>4</sub></b>,<b>B<sub>4</sub></b>,<b>C<sub>4</sub></b>,<b>D<sub>4</sub></b>,<b>E<sub>4</sub></b>) Stern–Volmer of sea cucumber ovum digests inducing intrinsic fluorescence quenching of α-amylase at different temperatures.</p>
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<p>Mode and type of inhibition. (<b>A<sub>1</sub></b>–<b>A<sub>5</sub></b>) Analysis of the inhibitory effect of sea cucumber ovum hydrolysate on α–amylase. (<b>B<sub>1</sub></b>–<b>B<sub>5</sub></b>) Lineweaver–Burk curves of sea cucumber ovum hydrolysate on α–amylase.</p>
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<p>Mode and type of inhibition. (<b>A<sub>1</sub></b>–<b>A<sub>5</sub></b>) Analysis of the inhibitory effect of sea cucumber ovum hydrolysate on α–amylase. (<b>B<sub>1</sub></b>–<b>B<sub>5</sub></b>) Lineweaver–Burk curves of sea cucumber ovum hydrolysate on α–amylase.</p>
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22 pages, 8075 KiB  
Article
Effects of Substituting Fishmeal (FM) Diet with a Diet of FM Plus Soy Protein Concentrate (SPC) Supplemented with Essential Amino Acids on the Growth and Gonadal Development of the Olive Flounder (Paralichthys olivaceus)
by Sang Hyun Lee, Yu Jin Sim, Jong-Won Park, Minhwan Jeong, Julan Kim, Seong-Mok Jeong, Dain Lee and Hyun Chul Kim
Fishes 2024, 9(12), 521; https://doi.org/10.3390/fishes9120521 - 19 Dec 2024
Viewed by 452
Abstract
Numerous studies have explored alternative protein sources to fishmeal (FM) to enhance fish diets, yet limited research exists on their effects on maturation. This study assessed the impact of replacing FM with soy protein concentrate (SPC) supplemented with lysine and methionine on growth [...] Read more.
Numerous studies have explored alternative protein sources to fishmeal (FM) to enhance fish diets, yet limited research exists on their effects on maturation. This study assessed the impact of replacing FM with soy protein concentrate (SPC) supplemented with lysine and methionine on growth and gonadal development in olive flounder (Paralichthys olivaceus). Three diets were tested: a control (Con) diet with 60% FM and two diets replacing FM with 25% (LF1) and 50% (LF2) SPC. Fish were fed to apparent satiation twice daily for 12 months. Growth performance and feed intake were not significantly different between groups. However, the gonadosomatic index varied with diet. Muscle composition and amino acid levels were similar across treatments, though n-3 fatty acids were higher in Con. Spermatogonia was increased, and spermatogenesis was impaired in SPC groups. At 12 months, oocytes in Con diets had absorbed yolk globules, whereas this was absent in SPC groups. Growth-related genes in the brain (growth hormones and insulin-like growth factor) were increased with higher SPC, while follicle-stimulating and luteinizing hormones decreased. Estrogen receptor α levels were elevated in SPC groups. Vitellogenin gene expression in gonads was highest in Con, while liver expression peaked in LF2. The expression of digestive enzymes, chymotrypsin2, and trypsin2 was highest in LF2, while lipase genes were lower. In summary, up to 50% FM replacement with SPC, with amino acid supplementation, supported growth performance and muscle composition without adverse effects on growth in olive flounder but influenced gonadal development. Full article
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Figure 1

Figure 1
<p>Hematoxylin and eosin-stained gonads of male olive flounder fed the experimental diets. (BV, blood vessel; C, cyst; SC, spermatocyte; SG, spermatogonium; SL, seminal lobule; S, sperm; SM, spermatid. Scale bars = 20 µm).</p>
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<p>Hematoxylin and eosin-stained gonads of male olive flounder fed the experimental diets. (C, cyst; SC, spermatocyte; SG, spermatogonium; SL, seminal lobule; S, sperm; SM, spermatid. Magnification = (<b>a</b>) 100×, (<b>b</b>) 400×. Scale bars = (<b>a</b>) 50 µm, (<b>b</b>) 20 µm).</p>
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<p>Hematoxylin and eosin-stained gonads of male olive flounder fed the experimental diets. (FC, follicular cell; NC, nucleus; NO, nucleolus; OC, oocyte; OD, oil droplet; OL, ovarian lumen; YG, yolk globule. Scale bars = 50 µm).</p>
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<p>Expression of growth-related genes in the brain of olive flounder (GH: <span class="html-italic">p</span> &lt; 0.00; IGF: <span class="html-italic">p</span> &lt; 0.00). GH, growth hormone; IGF, insulin-like growth factor.</p>
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<p>Expression of sex maturation-related genes in the brain of olive flounder (FSH: <span class="html-italic">p</span> &lt; 0.03; LH: <span class="html-italic">p</span> &lt; 0.00). FSH, follicle-stimulating hormone; LH, luteinizing hormone.</p>
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<p>Expression of estrogen receptor genes in the brain and gonad of olive flounder [{(<b>A</b>), ERα: <span class="html-italic">p</span> &lt; 0.00; ERβ: <span class="html-italic">p</span> &gt; 0.07}, {(<b>B</b>), ERα: <span class="html-italic">p</span> &gt; 0.29; ERβ: <span class="html-italic">p</span> &lt; 0.03}]. (<b>A</b>) Gene expression in the brain. (<b>B</b>) Gene expression in the gonad. ERα, estrogen receptor α; ERβ, estrogen receptor β.</p>
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<p>Vitellogenin gene expression in the gonad and liver of olive flounder (gonad: <span class="html-italic">p</span> &lt; 0.00; liver: <span class="html-italic">p</span> &lt; 0.00). (<b>A</b>) Gene expression in the gonad. (<b>B</b>) Gene expression in the liver. VIT, vitellogenin.</p>
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<p>Expression of digestive enzyme-related genes in the middle intestine of olive flounder (amylase: <span class="html-italic">p</span> &gt; 0.30; chymotrypsin2: <span class="html-italic">p</span> &lt; 0.00; trypsin2: <span class="html-italic">p</span> &lt; 0.00; trypsin3: <span class="html-italic">p</span> &lt; 0.00; lipase: <span class="html-italic">p</span> &lt; 0.00).</p>
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14 pages, 286 KiB  
Article
Rice-Fish Farming Improved Antioxidant Defences, Glucose Metabolism, and Muscle Nutrient of Carassius auratus in Sichuan Province
by Tao Yan, Yun-Yi Xie, Bo Zhou, Xu Kuang, Qing-Zhi Li, Feng-Qi Zhao, Qian-Dong Li and Bin He
Metabolites 2024, 14(12), 710; https://doi.org/10.3390/metabo14120710 - 17 Dec 2024
Viewed by 481
Abstract
Rice-fish farming is an ancient and enduring aquaculture model in China. This study aimed to assess the variations in digestive enzymes, antioxidant properties, glucose metabolism, and nutritional content between Carassius auratus reared in paddy fields and ponds. Notably, the levels of amylase and [...] Read more.
Rice-fish farming is an ancient and enduring aquaculture model in China. This study aimed to assess the variations in digestive enzymes, antioxidant properties, glucose metabolism, and nutritional content between Carassius auratus reared in paddy fields and ponds. Notably, the levels of amylase and trypsin in C. auratus from rice paddies were considerably higher compared to those from ponds. Additionally, the hepatic catalase (CAT) activity in fish from paddy (2.45 ± 0.16 U/mg) exceeded that of their pond counterparts (2.27 ± 0.25 U/mg). Regarding glucose metabolism, the activities of key enzymes such as Na+/K+-ATPase (NKA) (paddy: 82.45 ± 6.11 U/g; pond: 78.53 ± 7.18 U/g), hexokinase (HK) (paddy: 9.55 ± 0.58 U/g; pond: 8.83 ± 0.72 U/g), glucokinase (GK) (paddy: 4.09 ± 0.21 IU/g; pond: 3.44 ± 0.33 IU/g), glucose-6-phosphatase (G6Pase) (paddy: 85.71 ± 4.49 IU/g; pond: 79.12 ± 9.34 IU/g), and glucose-6-phosphate dehydrogenase (G6PDH) (paddy: 47.23 ± 3.22 U/g; pond: 42.31 ± 4.93 U/g) were significantly elevated in rice paddy-cultured fish compared to those in ponds. Conversely, phosphor-pyruvate kinase (PK) (paddy: 418.15 ± 31.89 U/g; pond: 570.16 ± 56.06 U/g) activity was markedly reduced in the paddy group. Hepatic glycogen content (paddy: 15.70 ± 0.98 ng/g; pond: 14.91 ± 1.24 ng/g) was also substantially higher in fish from paddy, although no significant differences in muscle glycogen content (paddy: 7.14 ± 0.59 ng/g; pond: 6.70 ± 0.52 ng/g) were observed between the two environments. In terms of nutritional composition, fish raised in paddy exhibited higher crude protein (paddy: 18.46 ± 0.47 g/100 g muscle; pond: 15.57 ± 0.25 g/100 g muscle) and crude ash (paddy: 1.19 ± 0.02 g/100 g muscle; pond: 0.97 ± 0.02 g/100 g muscle) than those in ponds, whereas the crude fat (paddy: 0.87 ± 0.04 g/100 g muscle; pond: 1.66 ± 0.04 g/100 g muscle) was notably lower in paddy fish. Furthermore, fish from rice paddies had a greater total content of monounsaturated fatty acids (MUFA) (paddy: 4.25 ± 0.24 g/100 g muscle; pond: 6.73 ± 0.27 g/100 g muscle), non-essential amino acids (NEAA) (paddy: 9.04 ± 0.3 g/100 g muscle; pond: 7.19 ± 0.21 g/100 g muscle), and delicious amino acids (DAA) (paddy: 7.11 ± 0.2 g/100 g muscle; pond: 5.45 ± 0.19 g/100 g muscle) compared to those from pond cultures. These findings suggest that rice-fish co-culture systems can yield healthier and more environmentally sustainable aquatic products by improving feed digestion and optimizing nutrient metabolism. Full article
(This article belongs to the Special Issue Metabolism and Nutrition in Fish)
18 pages, 1891 KiB  
Article
Effects of Replacing Fishmeal with American Cockroach Residue on the Growth Performance, Metabolism, Intestinal Morphology, and Antioxidant Capacity of Juvenile Cyprinus carpio
by Xiaofang Zou, Chenggui Zhang, Bingyan Guo, Yu Cao, Yongshou Yang, Peiyun Xiao and Xiaowen Long
Animals 2024, 14(24), 3632; https://doi.org/10.3390/ani14243632 - 17 Dec 2024
Viewed by 522
Abstract
Five isonitrogenous and isolipidic diets (Diet 1–Diet 5, with Diet 1 as the control) were formulated to replace 0%, 20%, 40%, 60%, and 80% of fishmeal with American cockroach residue. Juvenile Cyprinus carpio (initial body weight approximately 74 g) were randomly assigned to [...] Read more.
Five isonitrogenous and isolipidic diets (Diet 1–Diet 5, with Diet 1 as the control) were formulated to replace 0%, 20%, 40%, 60%, and 80% of fishmeal with American cockroach residue. Juvenile Cyprinus carpio (initial body weight approximately 74 g) were randomly assigned to these diets for a 10-week feeding trial. The Diet 3 group (40% replacement) showed significantly higher final body weight, weight gain rate, specific growth rate, and protein efficiency ratio compared to other groups. No significant differences were observed in crude protein, ash, and total amino acid content across the diets. Groups fed Diet 1 and Diet 2 exhibited higher intestinal trypsin, lipase, α-amylase, and hepatic trypsin activities. Serum triglyceride (TG) levels were highest in the Diet 5 group. Hepatic aspartate aminotransferase (AST) activity was significantly lower in the Diet 3 and Diet 5 groups compared to Diet 1. Serum urea nitrogen levels followed a non-linear trend, initially increasing, then decreasing, and rising again with increasing fishmeal replacement. No significant differences were found in serum total protein (TP) levels among the dietary groups. Intestinal villus number, muscle layer thickness, villus height, villus width, and crypt depth remained consistent across groups. However, goblet cell numbers were significantly reduced at the 60% replacement level, which could impair intestinal barrier function. Diet 3 showed higher serum and hepatic total superoxide dismutase (T-SOD) activity, while Diet 2 had the highest hepatic total antioxidant capacity (T-AOC) activity. Hepatic malondialdehyde (MDA) levels were lowest in the Diet 2 and Diet 5 groups. Immunoglobulin M (IgM) levels showed an increasing trend with higher fishmeal replacement levels. In conclusion, replacing fishmeal with American cockroach residue did not adversely affect growth performance or body composition in juvenile C. carpio. Substituting 20–40% of fishmeal with American cockroach residue enhanced antioxidant capacity and immune function in juvenile C. carpio. Full article
(This article belongs to the Section Aquatic Animals)
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<p>The activities of trypsin (<b>a</b>), lipase (<b>b</b>), and α-amylase (<b>c</b>) in the liver and intestine of juvenile <span class="html-italic">Cyprinus carpio.</span> Data are presented as mean ± SE (<span class="html-italic">n</span> = 3). The bars with different letters are significantly different according to Duncan’s test (<span class="html-italic">p</span> &lt; 0.05), while bars without letters or with the same letters are not significantly different (<span class="html-italic">p</span> &gt; 0.05).</p>
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<p>The intestinal morphology of juvenile <span class="html-italic">Cyprinus carpio</span>. GC: goblet cell; MT: muscle thickness; V: villi; VL: villus length; VW: villus width; CD: crypt depth.</p>
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20 pages, 6959 KiB  
Article
Dissecting Cytophagalysin: Structural and Biochemical Studies of a Bacterial Pappalysin-Family Metallopeptidase
by Eva Estevan-Morió, Juan Sebastián Ramírez-Larrota, Enkela Bushi and Ulrich Eckhard
Biomolecules 2024, 14(12), 1604; https://doi.org/10.3390/biom14121604 - 16 Dec 2024
Viewed by 633
Abstract
Cytophaga is a genus of Gram-negative bacteria occurring in soil and the gut microbiome. It is closely related to pathogenic Flavobacterium spp. that cause severe diseases in fish. Cytophaga strain L43-1 secretes cytophagalysin (CPL1), a 137 kDa peptidase with reported collagenolytic and gelatinolytic [...] Read more.
Cytophaga is a genus of Gram-negative bacteria occurring in soil and the gut microbiome. It is closely related to pathogenic Flavobacterium spp. that cause severe diseases in fish. Cytophaga strain L43-1 secretes cytophagalysin (CPL1), a 137 kDa peptidase with reported collagenolytic and gelatinolytic activity. We performed highly-confident structure prediction calculations for CPL1, which identified 11 segments and domains, including a signal peptide for secretion, a prosegment (PS) for latency, a metallopeptidase (MP)-like catalytic domain (CD), and eight immunoglobulin (Ig)-like domains (D3–D10). In addition, two short linkers were found at the D8–D9 and D9–D10 junctions, and the structure would be crosslinked by four disulfide bonds. The CPL1 CD was found closest to ulilysin from Methanosarcina acetivorans, which assigns CPL1 to the lower-pappalysin family within the metzincin clan of MPs. Based on the structure predictions, we aimed to produce constructs spanning the full-length enzyme, as well as PS+CD, PS+CD+D3, and PS+CD+D3+D4. However, we were successful only with the latter three constructs. We could activate recombinant CPL1 by PS removal employing trypsin, and found that both zymogen and mature CPL1 were active in gelatin zymography and against a fluorogenic gelatin variant. This activity was ablated in a mutant, in which the catalytic glutamate described for lower pappalyins and other metzincins was replaced by alanine, and by a broad-spectrum metal chelator. Overall, these results proved that our recombinant CPL1 is a functional active MP, thus supporting the conclusions derived from the structure predictions. Full article
(This article belongs to the Collection Feature Papers in 'Biomacromolecules: Proteins')
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<p>Biocomputational studies. (<b>A</b>) Sequence alignment of the prosegments (PSs) (green background) and catalytic domains (CDs) of CPL1 (UP Q46348), mirolysin (UP G8ULV1), and ulilysin (UP Q8TL28). Identical or equivalent residues are in red, and those shared by two sequences are in blue. The PS cysteine engaged in zinc-binding in the zymogen—putatively in CPL1—is framed. The extended zinc-binding motif, the residues shaping the common calcium site, and the Met-turn motif are shown over light-blue, orange, and cyan background, respectively. (<b>B</b>) Domain distribution along the chemical sequence predicted by <span class="html-italic">AlphaFold</span>, which foresees a signal peptide for secretion (SP), the PS, the CD, and immunoglobulin-like domains D3 through D10. Each domain is labelled, the respective limiting residues are indicated, and the average predicted local-distance difference test (pLDDT) is shown in parenthesis. In all cases, these values are close to or exceed the high-accuracy cut-off of ~90% [<a href="#B42-biomolecules-14-01604" class="html-bibr">42</a>], and are thus classed as high confidence. The only exception is the PS, whose prediction evinces an average pLDDT that is slightly lower, but still highly reliable for the main chain. Two short linkers (LNKs) would be intercalated between D8 and D9, and between D9 and D10. Predicted disulfide bonds are shown in orange. The cysteine putatively engaged in latency in the zymogen (C<sup>24</sup>) and the extended zinc-binding motif (H<sup>231</sup>–H<sup>241</sup>), as well as the Met-turn methionine (M<sup>284</sup>) and the maturation cleavage point (A<sup>66</sup>–E<sup>67</sup>; scissors) are further pinpointed. (<b>C</b>) pLDDT for each residue of the prediction (positions 1–1282) for each of the five distinct models obtained. (<b>D</b>) Sequence coverage for each residue of the prediction (positions 1–1282) vs. number of sequences. (<b>E</b>) Superposition of the five predicted models without further relaxation/minimization with each domain/segment in the colour of (<b>B</b>). Only PS, CD, D3, D4, and, roughly, D5 appear with similar relative orientations in all models. (<b>F</b>) Analysis of the predicted aligned error, which estimates if domains are correctly positioned relative to one another, for each residue of the prediction (positions 1–1282; model_1). Each segment/domain of (<b>B</b>) gives rise to a marine blue square along the diagonal. Off-diagonal blue values suggest well-predicted interactions between domains. (<b>G</b>) Superposition of the Cα-traces of the experimental structures of promirolysin (PS in sienna, CD in gold) and proulilysin (cyan/dodger blue) in standard orientation [<a href="#B15-biomolecules-14-01604" class="html-bibr">15</a>] onto the prediction of CPL1 (purple/pink). The CPL1 prediction matches proulilysin significantly better. The catalytic zinc (magenta sphere) and the common calcium (red sphere) of proulilysin are further displayed.</p>
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<p>Structural analysis of the predicted CPL1 domains. (<b>A</b>) Ribbon-type plot of the CPL1 PS and CD in cross-eye stereo. The secondary structure elements are labelled (α1p, α2p, α1–α9, and β1–β6). The putative cysteine-switch cysteine (C<sup>24</sup>), zinc-binding residues (H<sup>231</sup>, H<sup>235</sup> and H<sup>241</sup>), general base/acid glutamate (E<sup>232</sup>), Met-turn methionine (M<sup>284</sup>) and tyrosine-switch tyrosine (Y<sup>286</sup>), calcium-binding residues (D<sup>251</sup> and T<sup>256</sup>), as well as the putative disulfide-bonded cysteines (C<sup>247</sup>–C<sup>273</sup>; ① and C<sup>267</sup>–C<sup>292</sup>; ②) are shown for their side chains as sticks and numbered. The zinc and calcium cations were modelled based on the proulilysin (PDB 8CDB) and mature ulilysin (PDB 2CKI) structures. The putative maturation site (A<sup>66</sup>–E<sup>67</sup>) and the LNR-loop are highlighted by green and orange arrows, respectively. Depiction of the Ig-like domains (D3–D10) showing as ribbon- or Cα-plots (<b>B</b>) D3; (<b>C</b>) D5 (cyan Cα-plot) onto D3 (plum Cα-plot) in the same orientation as in (<b>B</b>); (<b>D</b>) D4; (<b>E</b>) D6 (brown Cα-plot) onto D4 (yellow Cα-plot) in the same orientation as (<b>D</b>); (<b>F</b>) D7; (<b>G</b>) D9 (orange Cα-plot) onto D7 (green Cα-plot) in the same orientation as (<b>F</b>); (<b>H</b>) D8 (disulfide bond C<sup>963</sup>–C<sup>1083</sup>; ①) and (<b>I</b>) D10. The β-strands and the N- and C-terminal residues are numbered in all cases.</p>
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<p>Recombinant CPL1 expression and purification. (<b>A</b>) Representative SDS-PAGE gels of nickel-affinity purifications of construct CPL1_1-3 (Q<sup>20</sup>–V<sup>444</sup>), both in its wild-type (left panel) and E<sup>232</sup>A-mutant (right panel) variants. Samples representing the flow through (FT), the wash-step with 20 mM imidazole (W20), and the first two elution fractions using 250 mM imidazole (E250-1/2) were analysed under reducing conditions. Lane M depicts the molecular-mass marker. The target protein migrated as a band at its expected molecular weight (~47 kDa). (<b>B</b>) Same as (<b>A</b>) for construct CPL1_1-4 (Q<sup>20</sup>–T<sup>591</sup>), which migrates as a ~63 kDa band as expected. (<b>C</b>) Representative calibrated size-exclusion chromatography profiles of the two constructs of (<b>A</b>) using bovine-serum albumin as the calibration standard, and with the conductivity trace shown in dark red (peak at ~21.3 mL), and (<b>D</b>) SDS-PAGE analyses of peak fractions B11 and B12 shown in (<b>C</b>) as orange bands. A retention volume of ~18.4 mL corresponds to an apparent molecular mass of ~41 kDa, which is consistent with the theoretic value (~47 kDa). (<b>E</b>,<b>F</b>) Same as (<b>C</b>,<b>D</b>) for the two constructs of (<b>B</b>). A retention volume of ~17.7 mL corresponds to an apparent molecular weight of ~61 kDa, which is consistent with the theoretic value (~63 kDa). SDS-PAGE gels were cropped for clarity. For full gel images, please refer to <a href="#app1-biomolecules-14-01604" class="html-app">Extended Data Figures S7–S10 in the supplement</a>.</p>
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<p>Trypsin-mediated activation and activity of CPL1 constructs. (<b>A</b>) SDS-PAGE analysis under non-reducing and reducing conditions, which shows that the trypsin-activated protease sample (act) shows a band ~7 kDa smaller than the non-activated sample (n.a.), which corresponds to the excision of the zymogenic N-terminal prosegment. (<b>B</b>) (<b>Left</b>) Average and standard deviation of relative activity of different amounts of activated wild-type CPL1_1-3 against the fluorogenic substrate DQ Gelatin (2 μg) compared to the non-activated zymogen. (<b>Right</b>) Ratio of activities between both protein variants (n = 16). (<b>C</b>) (<b>Left</b>) Fluorescence resulting from the turnover of DQ Gelatin by activated wild-type CPL1_1-3 and CPL1_1-4. The values shown in salmon for the latter are recalculated from the recorded curve at 3.2 nM and correspond to the same concentration as those for CPL1_1-3, and are therefore marked with an asterisk (*). (<b>Right</b>) Normalized molarity values for the two constructs (n = 5), which reveal equivalent activity. (<b>D</b>) SDS-PAGE analysis of the incubation of human type-I atelocollagen (10 μg) with 2 μg of wild-type CPL1_1-3 (<b>left</b>), 0.5 μg of <span class="html-italic">Clostridium histolyticum</span> collagenase (centre), and 0.1 μg (++) or 1 μg (+++) of bovine trypsin (right). The + and − signs indicate the presence or absence of collagen and the respective protease (cytophagalysin, collagenase, or trypsin, as labeled below the gels), with increasing + signs denoting higher protease concentrations. SDS-PAGE gels were cropped for clarity. For full gel images, please refer to <a href="#app1-biomolecules-14-01604" class="html-app">Extended Data Figures S11 and S12 in the supplementary materials</a>.</p>
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<p>CPL1 activity in gelatin zymography. (<b>A</b>) Representative gelatin zymograms (<b>left</b>) and SDS-PAGE analysis (<b>right</b>) under reducing conditions of wild-type variants CPL1_1-2 (<span class="html-italic">lane 1</span>), CPL1_1-4 (<span class="html-italic">lane 2</span>), and CPL1_1-3 (<span class="html-italic">lane 3</span>), which evince only minute activity due to the unfolding of the protein variants caused by the reducing conditions, as well as of inactive CPL1_1-3 E<sup>232</sup>A-mutant (<span class="html-italic">lane 4</span>). (<b>B</b>) Same as (<b>A</b>) under non-reducing conditions, which locally preserves the integrity of the recombinant proteins, thereby aiding in-gel refolding and consequently revealing significant activity for wild-type CPL1_1-2 (<span class="html-italic">lane 1</span>), CPL1_1-4 (<span class="html-italic">lane 2</span>), and CPL1_1-3 (<span class="html-italic">lane 3</span>), but not for the mutationally inactivated CPL1_1-3 variant (<span class="html-italic">lane 4</span>). SDS-PAGE gels and zymograms were cropped for clarity. For full gel and zymogram images, please refer to <a href="#app1-biomolecules-14-01604" class="html-app">Extended Data Figures S13 and S14 in the supplement</a>.</p>
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<p>Inhibition of activity of CPL1. (<b>A</b>) (<b>Left</b>) Complete activation of CPL1_1-3 (<span class="html-italic">lane act</span>) by trypsin in SDS-PAGE, as shown by the absence of the zymogen band that is found in <span class="html-italic">lane n.a.</span> In zymography (<b>Centre</b>), both samples exhibited activity for both activated and non-activated CPL1, with significantly increased activity observed in the activated sample. Importantly, no trypsin activity was detected in the CPL1 samples. For reference, trypsin activity (Right) at an apparent molecular weight of ~18 kDa is shown. In zymography however, both samples demonstrated activity for both activated and non-activated CPL1 (<b>Centre</b>), with activity enriched in the activated sample. Note, no trypsin activity was observed in CPL1 samples, and trypsin activity is shown at an apparent molecular weight of ~18 kDa (<b>Right</b>). (<b>B</b>) The activity of CPL1_1-3 against fluorogenic DQ Gelatin is efficiently inhibited by EDTA as expected for a metallopeptidase, yielding only residual values that are comparable to those of the E<sup>232</sup>A-mutant and trypsin, which does not cleave this substrate. Note that the CPL1_1-3 zymogen still has a residual activity of ~15% of the active form. SDS-PAGE gels and zymograms were cropped for clarity. For full gel and zymogram images, please refer to <a href="#app1-biomolecules-14-01604" class="html-app">Extended Data Figure S15 in the supplementary materials</a>.</p>
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18 pages, 3326 KiB  
Article
Efficient Production of Recombinant Human Brain-Derived Neurotrophic Factor in Escherichia coli Through the Engineering of Its Pro-Region
by Elisa Spaccapaniccia, Tiziano Cazzorla, Daniela Rossetti, Lucio De Simone, Maria Irene Antonangeli, Andrea Antonosante, Francesca Galli, Franca Cattani, Mariano Maffei and Franck Martin
Int. J. Mol. Sci. 2024, 25(24), 13425; https://doi.org/10.3390/ijms252413425 - 14 Dec 2024
Viewed by 577
Abstract
Thus far, no manufacturing process able to support industrialization has been reported for the recombinant human brain-derived neurotrophic factor (rhBDNF). Here, we described the setup of a new protocol for its production in Escherichia coli (E. coli) and its purification to [...] Read more.
Thus far, no manufacturing process able to support industrialization has been reported for the recombinant human brain-derived neurotrophic factor (rhBDNF). Here, we described the setup of a new protocol for its production in Escherichia coli (E. coli) and its purification to homogeneity. A synthetic gene, codifying for the neurotrophin precursor, was inserted into an E. coli expression vector and transformed into BL21 (DE3) strain. The recombinant protein accumulates, at high yields, into inclusion bodies. With the developed strategy, more than 50% of the precursor can be refolded. The protein is successively digested by trypsin and the rhBDNF mature form is finally purified by two additional chromatographic steps If the wild-type precursor can be efficiently obtained by the proposed methodology, its pro-peptide remotion, through enzymatic digestion, is however problematic. To circumvent this difficulty, the precursor hinge region, containing the natural furin recognition site, was engineered to be more specifically cleaved by trypsin. Notwithstanding the substitution of three residues in the pro-region carboxyterminal, the precursor correctly refolds and is efficiently cleaved to generate a biologically active mature rhBDNF. This efficient high-yield process fills the current need of a scalable protocol to produce GMP-grade material and unlocks the rhBDNF employment in future clinical investigations. Full article
(This article belongs to the Special Issue Recombinant Proteins, Protein Folding and Drug Discovery)
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Figure 1
<p>The rhProBDNF amino acid sequence as codified in the expression vector. The pro-region is reported in black, whereas the mature BDNF is reported in green. In red, the wild-type hinge region corresponding to the furin cleavage site in between the two domains. The numeration starts at the first methionine substituting the natural protein leader sequence.</p>
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<p>MiniBio microorganism growth curve example, measured by OD<sub>600nm</sub>. After 5.5 h of culture, at the end of the batch phase, temperature was shifted from 30 °C to 37 °C and the fed-batch phase started. One hour after the temperature increased, corresponding to the red dot on the curve, recombinant protein production was induced by the addition of IPTG. Fermentation was then continued for a further three hours. Fermentator icon was created with BioRender.</p>
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<p>MEP column typical elution profile. After loading and washing to baseline, the protein is eluted as a single peak by dropping the pH to 4. The blue line identifies the UV detection at 280 nm, the orange line refers to the measured conductivity, while the purple line identifies the pH. Chromatography column icon was created with BioRender.</p>
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<p>An SP Sepharose typical chromatogram of the wild-type ProBDNF digested by trypsin. The column has been eluted isocratically with a salt step. Fraction numbers are reported at the bottom of the graph. The mature BDNF protein was expected in fractions 6 and 7. Note that fraction 10, corresponding to column washing with 2 M NaCl, has a maximum absorbance of 2000 mAU. The blue line identifies the UV detection at 280 nm, the orange line refers to the measured conductivity.</p>
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<p>Hinge region amino-acidic sequences of the rhProBDNF wild-type cleavage site (Furin substrate) and “VSAR” variant (highlighted in red).</p>
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<p>A typical SP Sepharose elution profile chromatogram of the rhBDNF–VSAR variant after trypsin digestion. Fraction numbers are reported at the bottom of the graph. The blue line monitors the UV detection at 280 nm, the orange line refers to the measured conductivity.</p>
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<p>A representative phenyl Sepharose elution profile. After salt adjustment, the protein has been loaded on the HIC column and eluted with a first salt step. Fraction numbers are reported at the bottom of the graph. After elution, the column is washed by dropping salt concentration to zero. The blue line identifies the UV detection at 280 nm, the orange line refers to the measured conductivity.</p>
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<p>Mature rhBDNF protein characterization. (<b>a</b>) SDS-PAGE showing all the downstream process phases for rhBDNF production. Lane 1: rhProBDNF standard; Lane 2: Solubilized Inclusion Bodies; Lane 3: Refolded rhProBDNF VSAR; Lane 4: MEP fraction 1; Lane 5: Enzymatic digestion (SP T<sub>0</sub> load); Lane 6: HIC Phenyl T<sub>0</sub> load; Lane 7: rhBDNF API Bulk; Lane 8: rhBDNF standard (MK = molecular weight marker). SDS-PAGE was performed on a 4–12% separating gel under reducing conditions; (<b>b</b>) Dose–response curve for the rhBDNF (C6 proliferation bioassay). C6 cells were treated with the serially diluted and purified rhBDNF and 48 h later rhBDNF biological activity and EC<sub>50</sub> were determined. The results shown are the average of four independent replicate plate experiment and error bars to indicate SD. (<b>c</b>) Deconvoluted spectrum of liquid chromatography–mass spectrometry (LC–MS) analysis of rhBDNF under denaturing conditions (intact molecular weight analysis, IMW). (<b>d</b>) Western blot analysis of the rhBDNF purified protein. Lane 1: rhBDNF API bulk (MK = molecular weight marker).</p>
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<p>The rhProBDNF amino acid sequence and trypsin cleavage sites. Lysine (K) residues are highlighted in green, while arginines (R) in yellow. Red-highlighted residues are P<sub>1</sub>’ amino acids impeding trypsin cleavage. Black sequence refers to the Pro-peptide region, while green sequence to mature BDNF.</p>
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21 pages, 8441 KiB  
Article
Effects of Malondialdehyde on Growth Performance, Gastrointestinal Health, and Muscle Quality of Striped Catfish (Pangasianodon hypophthalmus)
by Cong Peng, Xinlangji Fu, Yumeng Zhang, Haitao Zhang, Yuantu Ye, Junming Deng and Beiping Tan
Antioxidants 2024, 13(12), 1524; https://doi.org/10.3390/antiox13121524 - 13 Dec 2024
Viewed by 508
Abstract
Malondialdehyde (MDA) is a reactive carbonyl compound produced through lipid peroxidation during feed storage, which poses a significant threat to fish health. This study aimed to evaluate the effects of dietary MDA on the growth rate, gastrointestinal health, and muscle quality of striped [...] Read more.
Malondialdehyde (MDA) is a reactive carbonyl compound produced through lipid peroxidation during feed storage, which poses a significant threat to fish health. This study aimed to evaluate the effects of dietary MDA on the growth rate, gastrointestinal health, and muscle quality of striped catfish (Pangasianodon hypophthalmus). A basal diet (M0) containing 34% crude protein and 10.5% crude lipid was formulated. Each group was sprayed with malondialdehyde solution (0, 5, 10, 20, 40, and 80 mg/kg, on dietary crude lipid basis; 0, 0.53, 1.07, 2.13, 4.26, and 8.52 mg/kg, on dietary basis) before feeding, respectively. Each diet was randomly assigned to triplicates of 30 striped catfish (initial weight 31.38 g) per net cage. After 8 weeks, dietary inclusion of MDA regardless of level significantly depressed the growth rate and feed utilization. The extent of structural damage to the gastrointestinal tract increased progressively with increasing dietary MDA levels. The extent of damage to the intestinal biological barrier (intestinal microbial structure), chemical barrier (trypsin, lipase, amylase, and maltase activity), physical barrier (zonula occludent-2, occludin, claudin 7α, and claudin 12 relative expression), and immune barrier (contents of complement 4, complement 3, immunoglobulin M, and lysozyme activity) was dose-related to dietary MDA. Moreover, a linear decline in the activities of intestinal antioxidant enzymes (catalas, superoxide dismutase, et al.) and anti-inflammatory factor (transforming growth factor beta1, interleukin 10) relative expression was noted alongside an increase in dietary MDA content. In contrast, the relative expression levels of intestinal inflammatory factor (interleukin 8, transcription factor p65, tumor necrosis factor alpha) relative expression displayed an opposing trend. Additionally, dietary MDA exerted a linear influence on muscle color and texture characteristics. In conclusion, high doses of MDA (5–80 mg/kg) reduced the growth performance of striped catfish, attributed to linear damage to the gastrointestinal tract, a linear decrease in antioxidant function, and the occurrence of an inflammatory response. High doses of MDA (>40 mg/kg) were observed to significantly increase dorsal muscle b-value and induce muscle yellowing. Full article
(This article belongs to the Special Issue Oxidative Stress and Nutrition in Aquatic Animals)
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Figure 1

Figure 1
<p>The scanning electron microscope of the stomach in striped catfish-fed diets with various levels of malondialdehyde (×3000). (<b>A</b>) Diet M0, (<b>B</b>) Diet M20, (<b>C</b>) Diet M80. Striped catfish-fed the M0 diet (<b>A</b>) showed the stomach mucosal surfaces were smooth, soft, and free of erosions, while stomach mucosal cells were ruptured, and the mucosa was extensively ulcerated in fish fed the M20 (<b>B</b>) and M80 (<b>C</b>) diets.</p>
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<p>The stomach histomorphology of striped catfish-fed diets with various levels of malondialdehyde (H&amp;E staining, ×40). (<b>A</b>) Diet M0, (<b>B</b>) Diet M5, (<b>C</b>) Diet M10, (<b>D</b>) Diet M20, (<b>E</b>) Diet M40, (<b>F</b>) Diet M80. VH, villi height; VW, villi width; MT, muscular layer thickness. Striped catfish-fed the M0 (<b>A</b>) and M5 (<b>B</b>) diets exhibited healthy stomach structure with intact columnar epithelium, stomach glands, mucosa, and submucosa, while damaged stomach tissue with the degenerated columnar epithelium, atrophied stomach glands, and destructed villus integrity was observed in striped catfish fed the M10 (<b>C</b>), M20 (<b>D</b>), M40 (<b>E</b>), and M80 (<b>F</b>) diets.</p>
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<p>The stomach histomorphology of striped catfish-fed diets with various levels of malondialdehyde (H&amp;E staining, ×40). (<b>A</b>) Diet M0, (<b>B</b>) Diet M5, (<b>C</b>) Diet M10, (<b>D</b>) Diet M20, (<b>E</b>) Diet M40, (<b>F</b>) Diet M80. VH, villi height; VW, villi width; MT, muscular layer thickness. Striped catfish-fed the M0 (<b>A</b>) and M5 (<b>B</b>) diets exhibited healthy stomach structure with intact columnar epithelium, stomach glands, mucosa, and submucosa, while damaged stomach tissue with the degenerated columnar epithelium, atrophied stomach glands, and destructed villus integrity was observed in striped catfish fed the M10 (<b>C</b>), M20 (<b>D</b>), M40 (<b>E</b>), and M80 (<b>F</b>) diets.</p>
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<p>The intestinal histomorphology of striped catfish-fed diets with various levels of malondialdehyde (H&amp;E staining, ×100). (<b>A</b>) Diet M0, (<b>B</b>) Diet M5, (<b>C</b>) Diet M10, (<b>D</b>) Diet M20, (<b>E</b>) Diet M40, (<b>F</b>) Diet M80. VH, villi height; VW, villi width; MT, muscular layer thickness. Striped catfish-fed the M0 (<b>A</b>) and M5 (<b>B</b>) diets exhibited normal intestines with intact villus, while the damaged intestine with shortened villus and thinned lamina propria was observed in fish fed the M10 (<b>C</b>), M20 (<b>D</b>), M40 (<b>E</b>), and M80 (<b>F</b>) diets.</p>
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<p>The intestinal microbial diversity of striped catfish-fed diets containing different levels of malondialdehyde. (<b>A</b>) Venn diagram based on the OTU level (each group is represented by a different color. The intersection part of the figure represents the common OTUs between different groups), (<b>B</b>) Principal Co-ordinates analysis diagram based on the OTU level and weighted_unifrac Distance (The dots represent a group, PCoA1 represents the principal coordinate component that best explains the variation in the data, and PCoA2 represents the principal coordinate component that accounts for most of the remaining variation).</p>
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<p>The intestinal microbial composition of striped catfish-fed diets containing different malondialdehyde levels. (<b>A</b>) Plot of microbial composition based on the phylum level; (<b>B</b>) Plot of microbial composition based on the genus level; (<b>C</b>) Heat map of microbial abundance based on the phylum level; (<b>D</b>) Heat map of microbial abundance based on the genus level. (<b>C</b>,<b>D</b>) each column represents a group; each row represents a species. The colors represent species abundance; nearer to orange is less abundance and nearer to blue is more abundance. (<b>E</b>) Evolutionary clade chart, (<b>F</b>) LDA distribution histogram (<b>E</b>) Illustrating the differential species across various taxonomic ranks, from inner to outer in the following sequence: Phylum, Class, Order, Family, Genus, Species. (<b>F</b>) bacterial taxa differentially represented in the intestinal microbial populations of different groups were identified by LEfSe using an LDA, with LDA scores &gt; 3 and <span class="html-italic">p</span> &lt; 0.05).</p>
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<p>The intestinal microbial functional prediction at the species level in striped catfish-fed diets with various malondialdehyde levels. (<b>A</b>) PICRUSt2 heat map of third-level functional pathway annotation (each column represents a group; each row represents a functional pathway. The colors represent the relative abundance of the pathway; the warmer the color (closer to orange), the less the abundance; the cooler the color (closer to blue), the more the abundance). (<b>B</b>) PICRUSt2 Welch’s t-test of third-level functional pathway annotation (significant when <span class="html-italic">p</span> &lt; 0.05).</p>
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<p>The scanning electron microscope of the intestine in striped catfish-fed diets with various levels of malondialdehyde (×7000). (<b>A</b>) Diet M0; (<b>B</b>) Diet M20; (<b>C</b>) Diet M80. MV, microvilli; M, mitochondria; TJ, tight junction; L, lysosome. Striped catfish-fed the M0 diet (<b>A</b>) showed normal enterocytes, while enterocytes with sparse and disorganized microvilli, swollen mitochondria, and widened intercellular space were observed in fish fed the M20 (<b>B</b>) and M80 (<b>C</b>) diets.</p>
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<p>The relative expression of inflammatory response and tight junction protein-related genes in striped catfish-fed diets with various levels of malondialdehyde (<span class="html-italic">n</span> = 6). Values are presented as means of triplication; means in the same row with different superscript letters represented a significant difference (<span class="html-italic">p</span> &lt; 0.05); PSE = pooled standard error of means. <span class="html-italic">ZO-2</span>, zonula occludent 2; <span class="html-italic">tnf-α</span>, tumor necrosis factor alpha; <span class="html-italic">p65</span>, transcription factor p65; <span class="html-italic">il-8</span>, interleukin 8; <span class="html-italic">il-10</span>, interleukin 10; <span class="html-italic">tgf-β1</span>, transforming growth factor beta1. Linear regression equation (where y is the response and x is the level of malondialdehyde in diet), R<sup>2</sup>, and <span class="html-italic">p</span>-Value (significant when <span class="html-italic">p</span> &lt; 0.05) are also given.</p>
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