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横纹斑竹鲨染色体水平的基因组组装,支架末端带有端粒重复序列

Chromosome-level genome assembly with telomeric repeats at scaffold ends for Rhabdosargus sarba.

作者信息

Shekhar Mudagandur S, Katneni Vinaya Kumar, Jangam Ashok Kumar, Krishnan Karthic, Prabhudas Sudheesh K, Raymond Jesudhas Jani Angel, Lal Kuldeep K

机构信息

ICAR-Central Institute of Brackishwater Aquaculture, No 75, Santhome High Road, MRC Nagar, Chennai, 600028, Tamil Nadu, India.

出版信息

Sci Data. 2025 Jul 11;12(1):1202. doi: 10.1038/s41597-025-05324-x.

Abstract

Rhabdosargus sarba, the goldlined seabream, is a euryhaline marine fish of great aquaculture potential. Genome sequencing and assembly of R. sarba was carried utilizing a multi-platform sequencing strategy that included long-read sequencing (PacBio HiFi), short-read sequencing (Illumina), and chromatin interaction mapping (Hi-C). The final genome assembly size after scaffolding was 764.59 Mb in 31 scaffolds with an N50 length of 33.98 Mb. Repeat profiling of primary assembly showed that 28.71% of the genome comprises of repeat elements. Gene prediction utilising the evidence from ab initio prediction and transcriptome data revealed 26,913 protein encoding genes and functional annotation and pathway analysis showed their participation in 332 pathways. This genome is an excellent resource for future research on genetic improvement and molecular breeding programmes for R. sarba.

摘要

金线鱼(Rhabdosargus sarba)是一种具有巨大水产养殖潜力的广盐性海洋鱼类。利用包括长读长测序(PacBio HiFi)、短读长测序(Illumina)和染色质相互作用图谱(Hi-C)在内的多平台测序策略,对金线鱼进行了基因组测序和组装。支架搭建后的最终基因组组装大小为764.59 Mb,分布在31个支架中,N50长度为33.98 Mb。初步组装的重复序列分析表明,基因组的28.71%由重复元件组成。利用从头预测和转录组数据的证据进行基因预测,共鉴定出26,913个蛋白质编码基因,功能注释和通路分析表明它们参与了332条通路。该基因组是未来金线鱼遗传改良和分子育种计划研究的优秀资源。

https://cdn.ncbi.nlm.nih.gov/pmc/blobs/ae33/12254218/c64679a98da9/41597_2025_5324_Fig1_HTML.jpg

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