Development and characterization of a skin cell line from Chinese perch (Siniperca chuatsi) and its application in aquatic animal viruses DOI

Xian‐Yu Meng,

Zihao Wang, Xue‐Dong Yu

et al.

Journal of Fish Diseases, Journal Year: 2022, Volume and Issue: 45(10), P. 1439 - 1449

Published: June 28, 2022

Abstract Chinese perch ( Siniperca chuatsi ), an important fish for the aquaculture industry of China, is often affected by viral diseases. A stable and sensitive cell line can play role in virus identification isolation, functional gene identification, pathogenic mechanism antiviral immunity study. In present study, a new S. skin cell, SCSC) derived from was established. The SCSC mainly consisted fibroblastic‐like cells, which grew well M199 medium supplemented with 10% foetal bovine serum at 25°C. Chromosome analysis revealed that (44%) has diploid chromosome number 2 n = 48. be transfected expressed exogenous efficiently. It also showed high sensitivity to several aquatic animal viruses different families including Rhabdoviridae, Iridoviridae Reoviridae. addition, RT‐PCR rhabdovirus (SCRV) started genome replication as early 3 h post infection induced up‐regulation variety immune‐related genes these related interleukin family, pattern recognition receptors, JAK–STAT pathway interferon regulatory factors. summary, current study provided tool research its interaction host.

Language: Английский

Low-dimensional learned feature spaces quantify individual and group differences in vocal repertoires DOI Creative Commons
Jack Goffinet, Samuel Brudner, Richard Mooney

et al.

eLife, Journal Year: 2021, Volume and Issue: 10

Published: May 14, 2021

Increases in the scale and complexity of behavioral data pose an increasing challenge for analysis. A common strategy involves replacing entire behaviors with small numbers handpicked, domain-specific features, but this approach suffers from several crucial limitations. For example, handpicked features may miss important dimensions variability, correlations among them complicate statistical testing. Here, by contrast, we apply variational autoencoder (VAE), unsupervised learning method, to learn directly quantify vocal behavior two model species: laboratory mouse zebra finch. The VAE converges on a parsimonious representation that outperforms variety analysis tasks, enables measurement moment-by-moment variability timescale tens milliseconds finch, provides strong evidence ultrasonic vocalizations do not cluster as is commonly believed, captures similarity tutor pupil birdsong qualitatively higher fidelity than previous approaches. In all, demonstrate utility modern approaches quantification complex high-dimensional behavior.

Language: Английский

Citations

86
Genomic architecture of adaptive radiation and hybridization in Alpine whitefish DOI Creative Commons
Rishi De‐Kayne, Oliver M. Selz, David A. Marques

et al.

Nature Communications, Journal Year: 2022, Volume and Issue: 13(1)

Published: Aug. 2, 2022

Adaptive radiations represent some of the most remarkable explosions diversification across tree life. However, constraints to rapid and how they are sometimes overcome, particularly relative roles genetic architecture hybridization, remain unclear. Here, we address these questions in Alpine whitefish radiation, using a whole-genome dataset that includes multiple individuals each 22 species belonging six ecologically distinct ecomorph classes several lake-systems. We reveal repeated ecological morphological along common environmental axis is associated with both genome-wide allele frequency shifts specific, larger effect, locus, gene edar. Additionally, highlight possible role introgression between from different lake-systems facilitating evolution persistence unique trait combinations ecology. These results importance genome secondary contact hybridization fuelling adaptive radiation.

Language: Английский

Citations

48
Zebrafish Feed Intake: A Systematic Review for Standardizing Feeding Management in Laboratory Conditions DOI Creative Commons
Rosario Licitra, Baldassare Fronte, Tiziano Verri

et al.

Biology, Journal Year: 2024, Volume and Issue: 13(4), P. 209 - 209

Published: March 23, 2024

Zebrafish are one of the most used animal models in biological research and a cost-effective alternative to rodents. Despite this, nutritional requirements standardized feeding protocols have not yet been established for this species. This is important avoid effects on experimental outcomes, especially when zebrafish preclinical studies, as many diseases confounding factors. A key aspect nutrition related feed intake, amount ingested by each fish daily. With goal standardizing among community, paper systematically reviews available data from 73 studies regimes (levels), diet composition. Great variability was observed regarding composition, crude protein (mean 44.98 ± 9.87%) lipid content (9.91 5.40%). Interestingly, gross energy levels diets were similar across reviewed (20.39 2.10 kilojoules/g feed). In papers, received predetermined quantity (feed supplied). The authors fed according voluntary intake then calculated (FI) only 17 papers. From quantitative point view, FI higher than fixed (pre-defined) supplied. Also, literature showed that biotic abiotic factors may affect FI. Finally, based gathered literature, new protocol proposed. summary, daily rate 9–10% body weight proposed larvae, whereas these values equal 6–8% juveniles 5% adults dry with proper used.

Language: Английский

Citations

10
Genomes reveal pervasive distant hybridization in nature among cyprinid fishes DOI Creative Commons
Li Ren, Xiaolong Tu, Mengxue Luo

et al.

GigaScience, Journal Year: 2025, Volume and Issue: 14

Published: Jan. 1, 2025

Genomic data have unveiled a fascinating aspect of the evolutionary past, showing that mingling different species through hybridization has left its mark on histories numerous life forms. However, relationship between events and origins cyprinid fishes remains unclear. In this study, we generated de novo assembled genomes 8 conducted phylogenetic analyses 24 species. Widespread allele sharing across boundaries was observed within 7 subfamilies fishes. Based systematic analysis multiple tissues, found testis exhibited conserved pattern divergence herbivorous Megalobrama amblycephala carnivorous Culter alburnus, suggesting potential link to incomplete reproductive isolation. Significant differences in expression 4 genes (dpp2, ctrl, psb7, ppce) liver intestine, accompanied by variations enzyme activities, indicated swift digestive secretion. Moreover, identified introgressed linked organ development sympatric with analogous feeding habits Cultrinae Leuciscinae subfamilies. Our findings highlight significant role played isolation frequent gene flow events, particularly those associated organs, driving speciation among diverse freshwater ecosystems.

Language: Английский

Citations

1
Improved contiguity of the threespine stickleback genome using long-read sequencing DOI Creative Commons

Shivangi Nath,

Daniel E. Shaw, Michael A. White

et al.

G3 Genes Genomes Genetics, Journal Year: 2021, Volume and Issue: 11(2)

Published: Jan. 23, 2021

Abstract While the cost and time for assembling a genome has drastically decreased, it still remains challenge to assemble highly contiguous genome. These challenges are rapidly being overcome by integration of long-read sequencing technologies. Here, we use improve contiguity threespine stickleback fish (Gasterosteus aculeatus) genome, prominent genetic model species. Using Pacific Biosciences sequencing, assembled freshwater from Paxton Lake. contigs this were able fill over 76.7% gaps in existing reference assembly, improving fivefold. Our gap filling approach was accurate, validated 10X Genomics long-distance linked-reads. In addition closing majority gaps, segments telomeres centromeres throughout This highlights power using long reads repetitive difficult regions genomes. latest build been released through newly designed community browser that aims consolidate growing number genomics datasets available fish.

Language: Английский

Citations

54
Characterization of myosin heavy chain (MYH) genes and their differential expression in white and red muscles of Chinese perch, Siniperca chuatsi DOI
Lin Chen,

Y. Pan,

Jia Cheng

et al.

International Journal of Biological Macromolecules, Journal Year: 2023, Volume and Issue: 250, P. 125907 - 125907

Published: July 22, 2023

Language: Английский

Citations

18
The digestive system of mandarin fish (Siniperca chuatsi) can adapt to domestication by feeding with artificial diet DOI
Yawei Shen, Huiyang Li, Jinliang Zhao

et al.

Aquaculture, Journal Year: 2021, Volume and Issue: 538, P. 736546 - 736546

Published: Feb. 26, 2021

Language: Английский

Citations

34
Genome-wide association study reveals growth-related SNPs and candidate genes in mandarin fish (Siniperca chuatsi) DOI
Yu Zhou,

Huang-Cui Fu,

Yingying Wang

et al.

Aquaculture, Journal Year: 2022, Volume and Issue: 550, P. 737879 - 737879

Published: Jan. 3, 2022

Language: Английский

Citations

23
Mandarin fish von Hippel-Linda protein regulates the NF-κB signaling pathway via interaction with IκB to promote fish ranavirus replication DOI Open Access
Zhimin Li,

Xiao-Wei Qin,

Qi Zhang

et al.

动物学研究, Journal Year: 2024, Volume and Issue: 45(5), P. 990 - 1000

Published: Jan. 1, 2024

The von Hippel-Lindau tumor suppressor protein (VHL), an E3 ubiquitin ligase, functions as a critical regulator of the oxygen-sensing pathway for targeting hypoxia-inducible factors. Recent evidence suggests that mammalian VHL may also be to NF-κB signaling pathway, although specific molecular mechanisms remain unclear. Herein, roles mandarin fish (

Language: Английский

Citations

6
Multi-genome comparisons reveal gain-and-loss evolution of anti-Mullerian hormone receptor type 2 as a candidate master sex-determining gene in Percidae DOI Creative Commons
Heiner Kuhl, Peter T. Euclide, Christophe Klopp

et al.

BMC Biology, Journal Year: 2024, Volume and Issue: 22(1)

Published: June 26, 2024

The Percidae family comprises many fish species of major importance for aquaculture and fisheries. Based on three new chromosome-scale assemblies in Perca fluviatilis, schrenkii, Sander vitreus along with additional percid reference genomes, we provide an evolutionary comparative genomic analysis their sex-determination systems.

Language: Английский

Citations

6