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Fish Genomics and Developmental Biology, 2nd Edition

A special issue of International Journal of Molecular Sciences (ISSN 1422-0067). This special issue belongs to the section "Molecular Biology".

Deadline for manuscript submissions: 20 July 2025 | Viewed by 2057

Special Issue Editors


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Guest Editor
Institute of Marine Biology, Biotechnology and Aquaculture, Hellenic Centre for Marine Research, 71003 Crete, Greece
Interests: epigenetics; development; teleost; regulation; sncRNA; lncRNA; methylation; histone modification
Special Issues, Collections and Topics in MDPI journals

E-Mail Website
Guest Editor
Faculty of Biosciences and Aquaculture, Nord University, Universitetsalleen 11, P.O. Box 1490, 8049 Bodø, Norway
Interests: genomics; development; teleost; aquaculture; transcriptomics; gene expression; environment; genomes; comparative genomics; population genomics; selective breeding; biomarker
Special Issues, Collections and Topics in MDPI journals

Special Issue Information

Dear Colleagues,

This Special Issue is a continuation of our previous Special Issue on “Fish Genomics and Developmental Biology” (https://www.mdpi.com/journal/ijms/special_issues/0BZE9ZAIV6).

Genomics has had a fast scientific, social, and economic impact and is along with the rapidly advancing technologies in the spotlight of many diverse research fields. Even though the -omics area is a comparatively young branch of science, the implementation of -omics data has become a common lab practice. One of the major milestones has certainly been the invention of next-generation sequencing technologies which enabled the fast with a relatively low-cost assessment and comparison of transcriptomes and genomes. Nevertheless, the generation of large datasets involves also the challenges of accurate data processing, storage, analysis, and most importantly interpretation.

The interest in teleosts species and the model fish zebrafish (Danio rerio) in particular, first arose due to its suitability to study human-related research topics as well as to investigate early development at the molecular level. The interest in non-model teleost studies is mainly due to their economic importance in fisheries and aquaculture. Today the genomes and transcriptomes of numerous teleosts have been sequenced and are stored in publicly accessible databases. These achievements have paved the way to investigate more cross-species gene function and regulation, and to better understand the molecular bases of important mechanisms in fish biology.

The objective of the present Special Issue is to highlight the most recent genomic advances in fish biology with an emphasis on development, since numerous events and parameters have to be in congruence during embryonic and larval development to ensure well-being and health at later life stages.

Dr. Elena Sarropoulou
Prof. Dr. Jorge Fernandes
Guest Editors

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Keywords

  • development
  • teleost
  • gene regulation
  • comparative genomics
  • genomics
  • aquaculture
  • transcriptomics
  • gene expression
  • environment
  • genomes
  • population genomics
  • selective breeding
  • biomarker

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Related Special Issue

Published Papers (2 papers)

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Research

13 pages, 808 KiB  
Communication
Toll-like Receptor Type 2 and 13 Gene Expression and Immune Cell Profiles in Diploid and Triploid Sterlets (Acipenser ruthenus): Insights into Immune Competence in Polyploid Fish
by Olga Jablonska, Sara Duda, Szczepan Gajowniczek, Anna Nitkiewicz and Dorota Fopp-Bayat
Int. J. Mol. Sci. 2025, 26(9), 3986; https://doi.org/10.3390/ijms26093986 - 23 Apr 2025
Viewed by 202
Abstract
Toll-like receptors (TLRs) are key components of the innate immune system in fish, responsible for recognizing pathogen-associated molecular patterns derived from bacteria, viruses, and fungi. The sterlet (Acipenser ruthenus), an endangered sturgeon species valued for its meat and caviar, is a [...] Read more.
Toll-like receptors (TLRs) are key components of the innate immune system in fish, responsible for recognizing pathogen-associated molecular patterns derived from bacteria, viruses, and fungi. The sterlet (Acipenser ruthenus), an endangered sturgeon species valued for its meat and caviar, is a promising model for studying the effects of polyploidy on immune gene regulation. This study examined the expression of Toll-like receptor type 2 (TLR2) and type 13 (TLR13) in the heart, liver, gills, spleen, and kidney of diploid and triploid healthy sterlets using real-time PCR. TLR2 and TLR13 were expressed in all tissues of both diploids and triploids. In diploids, TLR2 expression was the highest in the kidney and the lowest in the liver (p < 0.05). Similarly, TLR13 expression in diploids was highest in the kidney and gills, and lowest in the liver (p < 0.05). In triploids, no significant tissue-specific variation in TLR expression was observed (p > 0.05). Comparisons between diploid and triploid sterlets revealed higher TLR2 expression in the kidney and higher TLR13 expression in the heart and kidney of diploids (p < 0.05). These molecular findings were supported by leukocyte analysis, which showed a significantly lower percentage of lymphocytes and a higher proportion of neutrophils in triploids compared to diploids. Additionally, the proportion of thrombocytes was significantly elevated in triploids (p < 0.05). This study provides the first report of TLR expression in polyploid fish, offering new insights into immune modulation associated with polyploidy in sturgeons. Full article
(This article belongs to the Special Issue Fish Genomics and Developmental Biology, 2nd Edition)
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12 pages, 2876 KiB  
Article
Genome-Wide Association Study of Resistance to Largemouth Bass Ranavirus (LMBV) in Micropterus salmoides
by Pinhong Li, Xia Luo, Shaozhi Zuo, Xiaozhe Fu, Qiang Lin, Yinjie Niu, Hongru Liang, Baofu Ma and Ningqiu Li
Int. J. Mol. Sci. 2024, 25(18), 10036; https://doi.org/10.3390/ijms251810036 - 18 Sep 2024
Cited by 2 | Viewed by 1346
Abstract
The disease caused by Largemouth bass ranavirus (LMBV) is one of the most severe viral diseases in largemouth bass (Micropterus salmoides). It is crucial to evaluate the genetic resistance of largemouth bass to LMBV and develop markers for disease-resistance breeding. In [...] Read more.
The disease caused by Largemouth bass ranavirus (LMBV) is one of the most severe viral diseases in largemouth bass (Micropterus salmoides). It is crucial to evaluate the genetic resistance of largemouth bass to LMBV and develop markers for disease-resistance breeding. In this study, 100 individuals (45 resistant and 55 susceptible) were sequenced and evaluated for resistance to LMBV and a total of 2,579,770 variant sites (SNPs-single-nucleotide polymorphisms (SNPs) and insertions–deletions (InDels)) were identified. A total of 2348 SNPs-InDels and 1018 putative candidate genes associated with LMBV resistance were identified by genome-wide association analyses (GWAS). Furthermore, GO and KEGG analyses revealed that the 10 candidate genes (MHC II, p38 MAPK, AMPK, SGK1, FOXO3, FOXO6, S1PR1, IL7R, RBL2, and GADD45) were related to intestinal immune network for IgA production pathway and FoxO signaling pathway. The acquisition of candidate genes related to resistance will help to explore the molecular mechanism of resistance to LMBV in largemouth bass. The potential polymorphic markers identified in this study are important molecular markers for disease resistance breeding in largemouth bass. Full article
(This article belongs to the Special Issue Fish Genomics and Developmental Biology, 2nd Edition)
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