Chromosome-level genome assembly of sea scallop Placopecten magellanicus provides insights into the genetic characteristics and adaptive evolution of large scallops.
Placopecten magellanicus (Gmelin, 1791), a deep-sea Atlantic scallop, holds significant commercial value as a benthic marine bivalve along the northwest Atlantic coast. Recognizing its economic importance, the need to reconstruct its genome assembly becomes apparent, fostering insights into natural...
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ftpubmed:37977331 2024-09-15T18:26:22+00:00 Chromosome-level genome assembly of sea scallop Placopecten magellanicus provides insights into the genetic characteristics and adaptive evolution of large scallops. Xie, Xi Teng, Weiming Yu, Zuoan Li, Dacheng Yang, Miao Zhang, Haijiao Zheng, Jie Li, Hualin Sun, Yongxin Liu, Xiangfeng Zhou, Zunchun Zhang, Xiliang Du, Shaojun Li, Qi Chang, Yaqing Zhang, Ming Wang, Qingzhi 2023-11 https://doi.org/10.1016/j.ygeno.2023.110747 https://pubmed.ncbi.nlm.nih.gov/37977331 eng eng Elsevier Science https://doi.org/10.1016/j.ygeno.2023.110747 https://pubmed.ncbi.nlm.nih.gov/37977331 Copyright © 2023. Published by Elsevier Inc. Genomics ISSN:1089-8646 Volume:115 Issue:6 Comparative genomics Gene families Genome Placopecten magellanicus Sea scallop Journal Article Research Support, Non-U.S. Gov't 2023 ftpubmed https://doi.org/10.1016/j.ygeno.2023.110747 2024-07-09T16:02:00Z Placopecten magellanicus (Gmelin, 1791), a deep-sea Atlantic scallop, holds significant commercial value as a benthic marine bivalve along the northwest Atlantic coast. Recognizing its economic importance, the need to reconstruct its genome assembly becomes apparent, fostering insights into natural resources and generic breeding potential. This study reports a high-quality chromosome-level genome of P. magellanicus, achieved through the integration of Illumina short read sequencing, PacBio HiFi sequencing, and Hi-C sequencing techniques. The resulting assembly spans 1778 Mb with a scaffold N50 of 86.71 Mb. An intriguing observation arises - the genome size of P. magellanicus surpasses that of its Pectinidae family peers by 1.80 to 2.46 times. Within this genome, 28,111 protein-coding genes were identified. Comparative genomic analysis involving five scallop species unveils the critical determinant of this expanded genome: the proliferation of repetitive sequences recently inserted, contributing to its enlarged size. The landscape of whole genome collinearity sheds light on the relationships among scallop species, enhancing our broader understanding of their genomic framework. This genome provides genomic resources for future molecular biology research on scallops and serves as a guide for the exploration of longevity-related genes in scallops. Article in Journal/Newspaper Northwest Atlantic PubMed Central (PMC) Genomics 115 6 110747 |
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language |
English |
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Comparative genomics Gene families Genome Placopecten magellanicus Sea scallop |
spellingShingle |
Comparative genomics Gene families Genome Placopecten magellanicus Sea scallop Xie, Xi Teng, Weiming Yu, Zuoan Li, Dacheng Yang, Miao Zhang, Haijiao Zheng, Jie Li, Hualin Sun, Yongxin Liu, Xiangfeng Zhou, Zunchun Zhang, Xiliang Du, Shaojun Li, Qi Chang, Yaqing Zhang, Ming Wang, Qingzhi Chromosome-level genome assembly of sea scallop Placopecten magellanicus provides insights into the genetic characteristics and adaptive evolution of large scallops. |
topic_facet |
Comparative genomics Gene families Genome Placopecten magellanicus Sea scallop |
description |
Placopecten magellanicus (Gmelin, 1791), a deep-sea Atlantic scallop, holds significant commercial value as a benthic marine bivalve along the northwest Atlantic coast. Recognizing its economic importance, the need to reconstruct its genome assembly becomes apparent, fostering insights into natural resources and generic breeding potential. This study reports a high-quality chromosome-level genome of P. magellanicus, achieved through the integration of Illumina short read sequencing, PacBio HiFi sequencing, and Hi-C sequencing techniques. The resulting assembly spans 1778 Mb with a scaffold N50 of 86.71 Mb. An intriguing observation arises - the genome size of P. magellanicus surpasses that of its Pectinidae family peers by 1.80 to 2.46 times. Within this genome, 28,111 protein-coding genes were identified. Comparative genomic analysis involving five scallop species unveils the critical determinant of this expanded genome: the proliferation of repetitive sequences recently inserted, contributing to its enlarged size. The landscape of whole genome collinearity sheds light on the relationships among scallop species, enhancing our broader understanding of their genomic framework. This genome provides genomic resources for future molecular biology research on scallops and serves as a guide for the exploration of longevity-related genes in scallops. |
format |
Article in Journal/Newspaper |
author |
Xie, Xi Teng, Weiming Yu, Zuoan Li, Dacheng Yang, Miao Zhang, Haijiao Zheng, Jie Li, Hualin Sun, Yongxin Liu, Xiangfeng Zhou, Zunchun Zhang, Xiliang Du, Shaojun Li, Qi Chang, Yaqing Zhang, Ming Wang, Qingzhi |
author_facet |
Xie, Xi Teng, Weiming Yu, Zuoan Li, Dacheng Yang, Miao Zhang, Haijiao Zheng, Jie Li, Hualin Sun, Yongxin Liu, Xiangfeng Zhou, Zunchun Zhang, Xiliang Du, Shaojun Li, Qi Chang, Yaqing Zhang, Ming Wang, Qingzhi |
author_sort |
Xie, Xi |
title |
Chromosome-level genome assembly of sea scallop Placopecten magellanicus provides insights into the genetic characteristics and adaptive evolution of large scallops. |
title_short |
Chromosome-level genome assembly of sea scallop Placopecten magellanicus provides insights into the genetic characteristics and adaptive evolution of large scallops. |
title_full |
Chromosome-level genome assembly of sea scallop Placopecten magellanicus provides insights into the genetic characteristics and adaptive evolution of large scallops. |
title_fullStr |
Chromosome-level genome assembly of sea scallop Placopecten magellanicus provides insights into the genetic characteristics and adaptive evolution of large scallops. |
title_full_unstemmed |
Chromosome-level genome assembly of sea scallop Placopecten magellanicus provides insights into the genetic characteristics and adaptive evolution of large scallops. |
title_sort |
chromosome-level genome assembly of sea scallop placopecten magellanicus provides insights into the genetic characteristics and adaptive evolution of large scallops. |
publisher |
Elsevier Science |
publishDate |
2023 |
url |
https://doi.org/10.1016/j.ygeno.2023.110747 https://pubmed.ncbi.nlm.nih.gov/37977331 |
genre |
Northwest Atlantic |
genre_facet |
Northwest Atlantic |
op_source |
Genomics ISSN:1089-8646 Volume:115 Issue:6 |
op_relation |
https://doi.org/10.1016/j.ygeno.2023.110747 https://pubmed.ncbi.nlm.nih.gov/37977331 |
op_rights |
Copyright © 2023. Published by Elsevier Inc. |
op_doi |
https://doi.org/10.1016/j.ygeno.2023.110747 |
container_title |
Genomics |
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115 |
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6 |
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110747 |
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