Dissecting the chromosome-level genome of the Asian Clam (Corbicula fluminea)

Abstract The Asian Clam (Corbicula fluminea) is a valuable commercial and medicinal bivalve, which is widely distributed in East and Southeast Asia. As a natural nutrient source, the clam is rich in protein, amino acids, and microelements. The genome of C. fluminea has not yet been characterized; th...

Descripción completa

Guardado en:

Detalles Bibliográficos
Autores principales:	Tongqing Zhang, Jiawen Yin, Shengkai Tang, Daming Li, Xiankun Gu, Shengyu Zhang, Weiguo Suo, Xiaowei Liu, Yanshan Liu, Qicheng Jiang, Muzi Zhao, Yue Yin, Jianlin Pan
Formato:	article
Lenguaje:	EN
Publicado:	Nature Portfolio 2021
Materias:	Medicine R Science Q
Acceso en línea:	https://doaj.org/article/241921e46fb84beebfa1053da6a3adb5
Etiquetas:	Agregar Etiqueta Sin Etiquetas, Sea el primero en etiquetar este registro!

id	oai:doaj.org-article:241921e46fb84beebfa1053da6a3adb5
record_format	dspace
spelling	oai:doaj.org-article:241921e46fb84beebfa1053da6a3adb52021-12-02T16:26:22ZDissecting the chromosome-level genome of the Asian Clam (Corbicula fluminea)10.1038/s41598-021-94545-22045-2322https://doaj.org/article/241921e46fb84beebfa1053da6a3adb52021-07-01T00:00:00Zhttps://doi.org/10.1038/s41598-021-94545-2https://doaj.org/toc/2045-2322Abstract The Asian Clam (Corbicula fluminea) is a valuable commercial and medicinal bivalve, which is widely distributed in East and Southeast Asia. As a natural nutrient source, the clam is rich in protein, amino acids, and microelements. The genome of C. fluminea has not yet been characterized; therefore, genome-assisted breeding and improvements cannot yet be implemented. In this work, we present a de novo chromosome-scale genome assembly of C. fluminea using PacBio and Hi-C sequencing technologies. The assembled genome comprised 4728 contigs, with a contig N50 of 521.06 Kb, and 1,215 scaffolds with a scaffold N50 of 70.62 Mb. More than 1.51 Gb (99.17%) of genomic sequences were anchored to 18 chromosomes, of which 1.40 Gb (92.81%) of genomic sequences were ordered and oriented. The genome contains 38,841 coding genes, 32,591 (83.91%) of which were annotated in at least one functional database. Compared with related species, C. fluminea had 851 expanded gene families and 191 contracted gene families. The phylogenetic tree showed that C. fluminea diverged from Ruditapes philippinarum, ~ 228.89 million years ago (Mya), and the genomes of C. fluminea and R. philippinarum shared 244 syntenic blocks. Additionally, we identified 2 MITF members and 99 NLRP members in C. fluminea genome. The high-quality and chromosomal Asian Clam genome will be a valuable resource for a range of development and breeding studies of C. fluminea in future research.Tongqing ZhangJiawen YinShengkai TangDaming LiXiankun GuShengyu ZhangWeiguo SuoXiaowei LiuYanshan LiuQicheng JiangMuzi ZhaoYue YinJianlin PanNature PortfolioarticleMedicineRScienceQENScientific Reports, Vol 11, Iss 1, Pp 1-13 (2021)
institution	DOAJ
collection	DOAJ
language	EN
topic	Medicine R Science Q
spellingShingle	Medicine R Science Q Tongqing Zhang Jiawen Yin Shengkai Tang Daming Li Xiankun Gu Shengyu Zhang Weiguo Suo Xiaowei Liu Yanshan Liu Qicheng Jiang Muzi Zhao Yue Yin Jianlin Pan Dissecting the chromosome-level genome of the Asian Clam (Corbicula fluminea)
description	Abstract The Asian Clam (Corbicula fluminea) is a valuable commercial and medicinal bivalve, which is widely distributed in East and Southeast Asia. As a natural nutrient source, the clam is rich in protein, amino acids, and microelements. The genome of C. fluminea has not yet been characterized; therefore, genome-assisted breeding and improvements cannot yet be implemented. In this work, we present a de novo chromosome-scale genome assembly of C. fluminea using PacBio and Hi-C sequencing technologies. The assembled genome comprised 4728 contigs, with a contig N50 of 521.06 Kb, and 1,215 scaffolds with a scaffold N50 of 70.62 Mb. More than 1.51 Gb (99.17%) of genomic sequences were anchored to 18 chromosomes, of which 1.40 Gb (92.81%) of genomic sequences were ordered and oriented. The genome contains 38,841 coding genes, 32,591 (83.91%) of which were annotated in at least one functional database. Compared with related species, C. fluminea had 851 expanded gene families and 191 contracted gene families. The phylogenetic tree showed that C. fluminea diverged from Ruditapes philippinarum, ~ 228.89 million years ago (Mya), and the genomes of C. fluminea and R. philippinarum shared 244 syntenic blocks. Additionally, we identified 2 MITF members and 99 NLRP members in C. fluminea genome. The high-quality and chromosomal Asian Clam genome will be a valuable resource for a range of development and breeding studies of C. fluminea in future research.
format	article
author	Tongqing Zhang Jiawen Yin Shengkai Tang Daming Li Xiankun Gu Shengyu Zhang Weiguo Suo Xiaowei Liu Yanshan Liu Qicheng Jiang Muzi Zhao Yue Yin Jianlin Pan
author_facet	Tongqing Zhang Jiawen Yin Shengkai Tang Daming Li Xiankun Gu Shengyu Zhang Weiguo Suo Xiaowei Liu Yanshan Liu Qicheng Jiang Muzi Zhao Yue Yin Jianlin Pan
author_sort	Tongqing Zhang
title	Dissecting the chromosome-level genome of the Asian Clam (Corbicula fluminea)
title_short	Dissecting the chromosome-level genome of the Asian Clam (Corbicula fluminea)
title_full	Dissecting the chromosome-level genome of the Asian Clam (Corbicula fluminea)
title_fullStr	Dissecting the chromosome-level genome of the Asian Clam (Corbicula fluminea)
title_full_unstemmed	Dissecting the chromosome-level genome of the Asian Clam (Corbicula fluminea)
title_sort	dissecting the chromosome-level genome of the asian clam (corbicula fluminea)
publisher	Nature Portfolio
publishDate	2021
url	https://doaj.org/article/241921e46fb84beebfa1053da6a3adb5
work_keys_str_mv	AT tongqingzhang dissectingthechromosomelevelgenomeoftheasianclamcorbiculafluminea AT jiawenyin dissectingthechromosomelevelgenomeoftheasianclamcorbiculafluminea AT shengkaitang dissectingthechromosomelevelgenomeoftheasianclamcorbiculafluminea AT damingli dissectingthechromosomelevelgenomeoftheasianclamcorbiculafluminea AT xiankungu dissectingthechromosomelevelgenomeoftheasianclamcorbiculafluminea AT shengyuzhang dissectingthechromosomelevelgenomeoftheasianclamcorbiculafluminea AT weiguosuo dissectingthechromosomelevelgenomeoftheasianclamcorbiculafluminea AT xiaoweiliu dissectingthechromosomelevelgenomeoftheasianclamcorbiculafluminea AT yanshanliu dissectingthechromosomelevelgenomeoftheasianclamcorbiculafluminea AT qichengjiang dissectingthechromosomelevelgenomeoftheasianclamcorbiculafluminea AT muzizhao dissectingthechromosomelevelgenomeoftheasianclamcorbiculafluminea AT yueyin dissectingthechromosomelevelgenomeoftheasianclamcorbiculafluminea AT jianlinpan dissectingthechromosomelevelgenomeoftheasianclamcorbiculafluminea
_version_	1718384039509884928

Dissecting the chromosome-level genome of the Asian Clam (Corbicula fluminea)

Ejemplares similares