Full-Length Transcriptome Reconstruction Reveals the Genetic Mechanisms of Eyestalk Displacement and Its Potential Implications on the Interspecific Hybrid Crab (Scylla serrata ♀ × S. paramamosain ♂) DOI Creative Commons
Shaopan Ye, Xiaoyan Yu,

Huiying Chen

et al.

Biology, Journal Year: 2022, Volume and Issue: 11(7), P. 1026 - 1026

Published: July 7, 2022

The lack of high-quality juvenile crabs is the greatest impediment to growth mud crab (Scylla paramamosain) industry. To obtain hybrid offspring, a novel (S. serrata ♀ × S. paramamosain ♂) was successfully produced in our previous study. Meanwhile, an interesting phenomenon discovered, that some first-generation (F1) offspring’s eyestalks were displaced during crablet stage I. uncover genetic mechanism underlying eyestalk displacement and its potential implications, both single-molecule real-time (SMRT) Illumina RNA sequencing implemented. Using two-step collapsing strategy, three reconstructed transcriptomes obtained from purebred with normal (SPA), (NH), (DH). In total, 37 significantly differential alternative splicing (DAS) events (17 up-regulated 20 down-regulated) 1475 expressed transcripts (DETs) (492 983 detected DH. most significant DAS DETs annotated as being endoplasmic reticulum chaperone BiP leucine-rich repeat protein lrrA-like isoform X2. addition, top ten GO terms related cuticle or chitin. Overall, for interspecific provided valuable insights into mechanisms spp.) crossbreeding.

Language: Английский

The chromosome-level genome assembly of the red swamp crayfish Procambarus clarkii DOI Creative Commons
Mingcong Liao, Meng Xu,

Ruixue Hu

et al.

Scientific Data, Journal Year: 2024, Volume and Issue: 11(1)

Published: Aug. 14, 2024

Red swamp crayfish, Procambarus clarkii, is the most cultured freshwater crayfish species. It attracts significant research attention due to its considerable economic importance. However, limited availability of genome information has impeded further genetic studies and breeding programs. By utilizing Illumina, PacBio, Hi-C sequencing technologies, we present a more comprehensive continuous chromosome-level assembly for P. clarkii than published one. The final size 4.03 Gb, consisting 2,358 scaffolds with N50 42.87 Mb. Notably, 3.68 corresponding 91.42% genome, was anchored 94 chromosomes. comprises 70.64% repetitive sequences, including 5.21% tandem repeats 65.40% transposable elements. Additionally, total 4,456 non-coding RNAs 28,852 protein-coding genes were predicted in 96.26% annotated. This high-quality not only represents improvement provides insights into unique evolution, but also offers valuable developing aquaculture accelerating breeding.

Language: Английский

Citations

1
The potential modulation mechanisms of Dmrt-1 and Dmrt-3 affecting testicular development of Scylla paramamosain DOI
Bohao Peng,

Jinkun Huang,

Ziping Zhang

et al.

Aquaculture, Journal Year: 2024, Volume and Issue: 595, P. 741521 - 741521

Published: Aug. 24, 2024

Language: Английский

Citations

1
Chromosome-level reference genome for the Jonah crab, Cancer borealis DOI Creative Commons
Jennifer M. Polinski,

Timothy P. O’Donnell,

Andrea G. Bodnar

et al.

G3 Genes Genomes Genetics, Journal Year: 2024, Volume and Issue: unknown

Published: Nov. 6, 2024

Abstract The Jonah crab, Cancer borealis, is integral to marine ecosystems and supports a rapidly growing commercial fishery in the northwest Atlantic Ocean. This species also has long history as model for neuroscience that expanded our understanding of central pattern generators, neuromodulation, synaptic plasticity, connectivity neural circuits. Here, we present highly contiguous reference genome crab will provide an essential resource advance fisheries, conservation, biomedical research. Using combination PacBio long-read sequencing Omni-C scaffolding, generated final assembly spanning 691 Mb covering 51 chromosome-length scaffolds 106 additional contigs. Benchmarking Universal Single-Copy Ortholog (BUSCO) analysis indicated high-quality with completeness score 90.8%. Repeat annotation identified 1,649 repeat families making up 48.27% genome. Gene predictions annotated 24,830 protein coding genes 92.3% BUSCO score. family evolution revealed expansion gene associated nervous system function, targeted extensive repertoire genes. not only research but serve foundation investigate adaptation stress population structure support sustainable fisheries management during this time changing environmental conditions

Language: Английский

Citations

1
High-resolution chromosome-level genome of Scylla paramamosain provides molecular insights into adaptive evolution in crabs DOI Creative Commons
Yin Zhang, Ye Yuan, Meng‐Qian Zhang

et al.

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

Published: Nov. 7, 2024

Evolutionary adaptation drives organismal adjustments to environmental pressures, exemplified in the diverse morphological and ecological adaptations seen Decapoda crustaceans, particularly brachyuran crabs. Crabs thrive ecosystems, from coral reefs hydrothermal vents terrestrial habitats. Despite their importance, genetic mechanisms underpinning developmental processes, reproductive strategies, nutrient acquisition remain poorly understood.

Language: Английский

Citations

1
Full-Length Transcriptome Reconstruction Reveals the Genetic Mechanisms of Eyestalk Displacement and Its Potential Implications on the Interspecific Hybrid Crab (Scylla serrata ♀ × S. paramamosain ♂) DOI Creative Commons
Shaopan Ye, Xiaoyan Yu,

Huiying Chen

et al.

Biology, Journal Year: 2022, Volume and Issue: 11(7), P. 1026 - 1026

Published: July 7, 2022

The lack of high-quality juvenile crabs is the greatest impediment to growth mud crab (Scylla paramamosain) industry. To obtain hybrid offspring, a novel (S. serrata ♀ × S. paramamosain ♂) was successfully produced in our previous study. Meanwhile, an interesting phenomenon discovered, that some first-generation (F1) offspring’s eyestalks were displaced during crablet stage I. uncover genetic mechanism underlying eyestalk displacement and its potential implications, both single-molecule real-time (SMRT) Illumina RNA sequencing implemented. Using two-step collapsing strategy, three reconstructed transcriptomes obtained from purebred with normal (SPA), (NH), (DH). In total, 37 significantly differential alternative splicing (DAS) events (17 up-regulated 20 down-regulated) 1475 expressed transcripts (DETs) (492 983 detected DH. most significant DAS DETs annotated as being endoplasmic reticulum chaperone BiP leucine-rich repeat protein lrrA-like isoform X2. addition, top ten GO terms related cuticle or chitin. Overall, for interspecific provided valuable insights into mechanisms spp.) crossbreeding.

Language: Английский

Citations

5