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Fishes
Special Issues
Shellfish Genetics and Breeding for Aquaculture
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Shellfish Genetics and Breeding for Aquaculture

A special issue of Fishes (ISSN 2410-3888). This special issue belongs to the section "Genetics and Biotechnology".

Deadline for manuscript submissions: 28 February 2025 | Viewed by 788

Special Issue Editors

Prof. Dr. Zhihua Lin

E-Mail Website
Guest Editor
College of Biological Environmental Sciences, Zhejiang Wanli University, Ningbo 315100, China
Interests: artificial and genetic breeding; molluscs; aquaculture; breeding strategies
Prof. Dr. Yongbo Bao

E-Mail Website
Guest Editor
Zhejiang Key Laboratory of Aquatic Germplasm Resources, College of Biological and Environmental Sciences, Zhejiang Wanli University, Ningbo 315100, China
Interests: genetic breeding; molluscs; immunity; molecular genetics; disease resistance
Special Issues, Collections and Topics in MDPI journals

Special Issue Information

Dear Colleagues,

Shellfish are the second largest group of animals in the world and play a vital role in global aquaculture, significantly contributing to food security and the economy. As global demand for sustainable seafood continues to rise, advancing our understanding of shellfish genetics and breeding is crucial for improving production efficiency and enhancing resilience.

This Special Issue aims to consolidate the latest research on shellfish genetics and breeding, offering new insights and innovative approaches to support sustainable aquaculture. We encourage submissions of original research, comprehensive reviews, and perspectives on various topics, including, but not limited to, the following:

  • Genetic improvement and selection strategies for shellfish species;
  • Advances in molecular tools and techniques for shellfish breeding;
  • Understanding the genetic basis of disease resistance and environmental adaptation in shellfish;
  • The role of genomics in enhancing shellfish breeding programs;
  • Sustainable breeding practices that address climate change impacts.

We look forward to receiving your contributions to this critical and rapidly evolving field.

Prof. Dr. Zhihua Lin
Prof. Dr. Yongbo Bao
Guest Editors

Manuscript Submission Information

Manuscripts should be submitted online at www.mdpi.com by registering and logging in to this website. Once you are registered, click here to go to the submission form. Manuscripts can be submitted until the deadline. All submissions that pass pre-check are peer-reviewed. Accepted papers will be published continuously in the journal (as soon as accepted) and will be listed together on the special issue website. Research articles, review articles as well as short communications are invited. For planned papers, a title and short abstract (about 100 words) can be sent to the Editorial Office for announcement on this website.

Submitted manuscripts should not have been published previously, nor be under consideration for publication elsewhere (except conference proceedings papers). All manuscripts are thoroughly refereed through a single-blind peer-review process. A guide for authors and other relevant information for submission of manuscripts is available on the Instructions for Authors page. Fishes is an international peer-reviewed open access monthly journal published by MDPI.

Please visit the Instructions for Authors page before submitting a manuscript. The Article Processing Charge (APC) for publication in this open access journal is 2600 CHF (Swiss Francs). Submitted papers should be well formatted and use good English. Authors may use MDPI's English editing service prior to publication or during author revisions.

Keywords

  • shellfish genetics
  • artificial breeding
  • genetic improvement
  • disease resistance
  • sustainable aquaculture

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  • Greater discoverability: Special Issues support the reach and impact of scientific research. Articles in Special Issues are more discoverable and cited more frequently.
  • Expansion of research network: Special Issues facilitate connections among authors, fostering scientific collaborations.
  • External promotion: Articles in Special Issues are often promoted through the journal's social media, increasing their visibility.
  • e-Book format: Special Issues with more than 10 articles can be published as dedicated e-books, ensuring wide and rapid dissemination.

Further information on MDPI's Special Issue polices can be found here.

Published Papers (2 papers)

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Research

10 pages, 9807 KiB  
Article
The Heme Cavity Is Essential for the Peroxidase and Antibacterial Activity of Homodimer Hemoglobin from the Blood Clam Tegillarca granosa
by Lili Pu, Shuting Dai, Zongming Wu, Sufang Wang and Yongbo Bao
Fishes 2024, 9(12), 512; https://doi.org/10.3390/fishes9120512 (registering DOI) - 15 Dec 2024
Viewed by 158
Abstract
This study investigates the essential role of the heme cavity in the peroxidase and antibacterial activities of homodimeric hemoglobin (Tg-HbI) from the blood clam Tegillarca granosa. After treatment with sodium dodecyl sulfate (SDS), the peroxidase and antibacterial activities of the Tg-HbI were [...] Read more.
This study investigates the essential role of the heme cavity in the peroxidase and antibacterial activities of homodimeric hemoglobin (Tg-HbI) from the blood clam Tegillarca granosa. After treatment with sodium dodecyl sulfate (SDS), the peroxidase and antibacterial activities of the Tg-HbI were significantly inhibited, with the degree of inhibition correlating positively with the SDS concentration. Fluorescence spectroscopy, UV-Vis spectroscopy, and molecular docking analysis further revealed that SDS interacts with key amino acid residues (e.g., His70 and His102) in the heme cavity of Tg-HbI, causing conformational changes that disrupt the internal hydrophobic interactions, thus inhibiting its function. This study confirms that the antibacterial effect of Tg-HbI is mediated through its peroxidase activity and that the heme cavity plays a critical role in maintaining this activity. These findings lay a foundation for further research on the immune defense functions of hemoglobin and provide new insights into the mechanisms of environmental adaptation in T. granosa. Full article
(This article belongs to the Special Issue Shellfish Genetics and Breeding for Aquaculture)
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Figure 1

Figure 1
<p>Effects of SDS on the peroxidase and antibacterial activities of Tg-HbI. (<b>a</b>) Inactivation of Tg-HbI in the presence of SDS. (<b>b</b>) Effects of SDS on the antibacterial activity of Tg-HbI against <span class="html-italic">B. subtilis</span>. 1, SDS; 2, Tg-HbI; 3, mixed solution of Tg-HbI and SDS.</p> Full article ">Figure 2
<p>Effect of SDS on the fluorescence of Tg-HbI. (<b>a</b>) Alterations in the intrinsic fluorescence emission spectra of Tg-HbI in the presence of SDS. (<b>b</b>) Intrinsic fluorescence intensity changes. (<b>c</b>) Maximum emission wavelength changes. (<b>d</b>) Alterations in the ANS binding fluorescence spectra of Tg-HbI in the presence of SDS. (<b>e</b>) ANS fluorescence intensity changes. (<b>f</b>) Alterations in the maximum emission wavelength of ANS.</p> Full article ">Figure 3
<p>Effect of SDS on the UV-Vis absorbance spectra of Tg-HbI. (<b>a</b>) Alterations in the UV-Vis absorbance spectra of Tg-HbI in the presence of SDS. (<b>b</b>) Maximum absorbance changes. (<b>c</b>) Maximum absorption wavelength changes.</p> Full article ">Figure 4
<p>Minimum energy docked pose of the complex with SDS and Tg-HbI. (<b>a</b>) Overall structure of SDS in complex with Tg-HbI. The structure of the Tg-HbI subunit displayed in cartoon form. SDS is colored green. (<b>b</b>) 3D interaction of SDS with the active site pocket of Tg-HbI. The key residues involved in ligand binding are shown as blue sticks. Yellow dashed lines represent H-bonds. (<b>c</b>) 2D diagram of intermolecular interactions. H-bonds are depicted as green dashed lines. Residues involved in hydrophobic interactions are shown as the spoked arcs.</p> Full article ">
13 pages, 2737 KiB  
Article
The Structure Analysis and mRNA Expression of CaV2 Gene Responding to Hypoxia Stress in Anadara granosa
by Yang Zhang, Hongxing Liu, Yongbo Bao and Zhilan Peng
Fishes 2024, 9(10), 409; https://doi.org/10.3390/fishes9100409 - 12 Oct 2024
Viewed by 561
Abstract
The blood clam (Anadara granosa) is an economic bivalve that is relatively tolerant to hypoxia, but its molecular mechanism of hypoxia tolerance is unclear. We found that a significant decrease in extracellular Ca2+ concentration and a marked increase in intracellular [...] Read more.
The blood clam (Anadara granosa) is an economic bivalve that is relatively tolerant to hypoxia, but its molecular mechanism of hypoxia tolerance is unclear. We found that a significant decrease in extracellular Ca2+ concentration and a marked increase in intracellular Ca2+ concentration was observed in the blood clam through the fluorescence probe method, under hypoxic conditions at 0.5 mg/L. Concomitantly, there was a downward trend in the expression level of CaV2 mRNA, whereas NFAT (nuclear factor of activated T cells) expression increased by qRT-PCR. These findings suggest that the elevated intracellular Ca2+ concentration may activate negative transcription factors of NFAT, which subsequently suppresses the transcription of CaV2, leading to its decreased expression. Then, the NFAT RNA interference experiments supported this hypothesis. Sequence analysis and 3D structure prediction revealed conserved and mutated residue sites in blood clam compared to other bivalves. Hypoxia-induced changes in intracellular and extracellular Ca2+ concentrations, activating transcription factor NFAT and suppressing CaV2 expression. This study highlights the key roles of CaV2 and NFAT in hypoxia adaptation, paving the way for further exploration of hypoxia tolerance mechanisms in mollusca. Full article
(This article belongs to the Special Issue Shellfish Genetics and Breeding for Aquaculture)
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Graphical abstract

Graphical abstract
Full article ">Figure 1
<p>Conformational difference and sequence alignment between blood clam (<span class="html-italic">T. gr</span>) and <span class="html-italic">S. constricta</span> (<span class="html-italic">S. co</span>) in Pos23→37 and residue 314.</p> Full article ">Figure 2
<p>Comparison of <span class="html-italic">CaV2</span> and <span class="html-italic">NFAT</span> expression between transcriptome and qRT-PCR.</p> Full article ">Figure 3
<p>(<b>a</b>) Comparison of extracellular calcium ion concentration at 24 h under hypoxia stress. (<b>b</b>) Comparison of extracellular calcium ion concentration at 48 h under hypoxia stress. The asterisk (*) in the bar chart presented signifies a statistically significant difference (<span class="html-italic">p</span> &lt; 0.05) between the control group and hypoxic group.</p> Full article ">Figure 4
<p>Comparison of intracellular calcium ion concentration signals between the experimental group and the control group after 24 h and 48 h stress. The asterisk (*) in the bar chart presented signifies a statistically significant difference (<span class="html-italic">p</span> &lt; 0.05) between the control group and hypoxic group.</p> Full article ">Figure 5
<p>Comparison of intracellular calcium ion fluorescence intensity of hemocytes between control group (<b>a</b>) and experimental group (<b>b</b>) after 48 h of hypoxia stress. The fluorescence intensity of the experimental group was stronger than that of the control group. Comparison of intracellular calcium ion fluorescence intensity of hemocytes between control group (<b>c</b>) and interference group (<b>d</b>). The fluorescence intensity of the interference group was stronger than that of the control group.</p> Full article ">Figure 6
<p>(<b>a</b>) Expression changes of <span class="html-italic">NFAT</span> after RNAi. (<b>b</b>) Expression changes of <span class="html-italic">CaV2</span> after <span class="html-italic">NFAT</span> interference. (<b>c</b>) Comparison of extracellular calcium ion concentration signal between the interference group and the control group. The asterisk (*) in the bar chart presented signifies a statistically significant difference (<span class="html-italic">p</span> &lt; 0.05) between the control group and interference group.</p> Full article ">
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