De novo transcriptome assembly for Pachygrapsus marmoratus, an intertidal brachyuran crab

Pinosio Sara; Fratini Sara; Cannicci Stefano; Oliva Matteo; Pretti Carlo; Baratti Mariella

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De novo transcriptome assembly for Pachygrapsus marmoratus, an intertidal brachyuran crab

机译：De Novo转录组组件Pachygrapsus Marmoratus，intertival Brachyuran螃蟹

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摘要

The marble crab Pachygrapsus marmoratus inhabits the rocky shores of the Mediterranean Sea, Black Sea and East Atlantic Ocean. As other intertidal species, it is considered a model species to study the effects of environmental stressors on natural populations. In this study, we performed Illumina next-generation sequencing on eleven P. marmoratus specimens with the aims to (i) reconstruct their whole transcriptome, (ii) perform a functional annotation of the assembled transcriptome and (iii) develop gene-based markers for future genetic and genomic studies on this as well as other brachyuran species. We obtained a transcriptome assembly constituted by 56,308 unigenes and covering about 60.3 Mbp. We detected 43,915 Simple Sequence Repeats (SSRs) and 192,631 high-quality Single Nucleotide Polymorphisms (SNPs). Due to the scarcity of genomic resources in decapods, and crabs in particular, our results constitute a valuable resource for future studies on brachyuran crabs. The present data also represent a sound resource to investigate biological responses to pollution in intertidal and marine populations.

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来源
《Marine genomics》 |2021年第1期|共5页
作者
Pinosio Sara; Fratini Sara; Cannicci Stefano; Oliva Matteo; Pretti Carlo; Baratti Mariella;
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作者单位

Inst Biosci &

Bioresources IBBR CNR Via Madonna Piano 10 I-50019 Sesto Fiorentino Italy;

Univ Florence Dept Biol Via Madonna del Piano 6 I-50019 Sesto Fiorentino Italy;

Univ Florence Dept Biol Via Madonna del Piano 6 I-50019 Sesto Fiorentino Italy;

Interuniv Ctr Marine Biol CIBM G Bacci Viale N Sauro 4 I-57128 Livorno Italy;

Interuniv Ctr Marine Biol CIBM G Bacci Viale N Sauro 4 I-57128 Livorno Italy;

Inst Biosci &

Bioresources IBBR CNR Via Madonna Piano 10 I-50019 Sesto Fiorentino Italy;

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原文格式 PDF
正文语种 eng
中图分类遗传学;
关键词
Crab; Crustacean; de novo transcriptome assembly; Decapoda; Marine pollution;

机译：螃蟹;甲壳类动物;de novo转录组组件;脱像;海洋污染;

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De novo transcriptome assembly for Pachygrapsus marmoratus, an intertidal brachyuran crab

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