Supporting data for "Whole genome sequencing of Chinese clearhead icefish, Protosalanx hyalocranius"
Chinese clearhead icefish, Protosalanx hyalocranius, is a representative icefish species with economic importance and special appearance. Due to its great economic values in China, the fish was introduced into Lake Dianchi and several other lakes from the Lake Taihu half a century ago. Similar to th...
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ftdatacite:10.5524/100262 2023-05-15T16:42:04+02:00 Supporting data for "Whole genome sequencing of Chinese clearhead icefish, Protosalanx hyalocranius" Liu, Kai Dongpo Xu Li, Jia Bian, Chao Jinrong Duan Yanfeng Zhou Minying Zhang Xinxin You You, Yang Jieming Chen Yu, Hui Gangchun Xu Di-An Fang Qiang, Jun Shulun Jiang He, Jie Junmin Xu Shi, Qiong Zhiyong Zhang Pao Xu 2016 https://dx.doi.org/10.5524/100262 http://gigadb.org/dataset/100262 en eng GigaScience Database CC0 1.0 Universal http://creativecommons.org/publicdomain/zero/1.0 CC0 Genomic Clearhead icefish Protosalanx hyalocranius Whole genome sequencing Genome assembly Gene prediction Repetitive sequences dataset Dataset GigaDB Dataset 2016 ftdatacite https://doi.org/10.5524/100262 2021-11-05T12:55:41Z Chinese clearhead icefish, Protosalanx hyalocranius, is a representative icefish species with economic importance and special appearance. Due to its great economic values in China, the fish was introduced into Lake Dianchi and several other lakes from the Lake Taihu half a century ago. Similar to the Sinocyclocheilus cavefish, the clearhead icefish has certain cavefish-like traits, such as transparent body and nearly scaleless skin. Here, we provide the whole genome sequence of this surface-dwelling fish and generated a draft genome assembly, aiming at exploring molecular mechanisms for the biological interests. A total of 252.1 gigabases (Gb) of raw reads were sequenced. Subsequently, a novel draft genome assembly was generated, with the scaffold N50 reaching 1.163 Mb. The genome completeness was estimated to be 98.39% by using the CEGMA evaluation. Finally, we annotated 19,884 protein-coding genes and observed that repeat sequences account for 24.43% of the genome assembly. The genome assembly will provide a solid foundation for further molecular breeding and germplasm resource protection in Chinese clearhead icefish, as well as other icefishes. It is also a valuable genetic resource for revealing the molecular mechanisms for the cavefish-like characters. Dataset Icefish DataCite Metadata Store (German National Library of Science and Technology) |
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Open Polar |
collection |
DataCite Metadata Store (German National Library of Science and Technology) |
op_collection_id |
ftdatacite |
language |
English |
topic |
Genomic Clearhead icefish Protosalanx hyalocranius Whole genome sequencing Genome assembly Gene prediction Repetitive sequences |
spellingShingle |
Genomic Clearhead icefish Protosalanx hyalocranius Whole genome sequencing Genome assembly Gene prediction Repetitive sequences Liu, Kai Dongpo Xu Li, Jia Bian, Chao Jinrong Duan Yanfeng Zhou Minying Zhang Xinxin You You, Yang Jieming Chen Yu, Hui Gangchun Xu Di-An Fang Qiang, Jun Shulun Jiang He, Jie Junmin Xu Shi, Qiong Zhiyong Zhang Pao Xu Supporting data for "Whole genome sequencing of Chinese clearhead icefish, Protosalanx hyalocranius" |
topic_facet |
Genomic Clearhead icefish Protosalanx hyalocranius Whole genome sequencing Genome assembly Gene prediction Repetitive sequences |
description |
Chinese clearhead icefish, Protosalanx hyalocranius, is a representative icefish species with economic importance and special appearance. Due to its great economic values in China, the fish was introduced into Lake Dianchi and several other lakes from the Lake Taihu half a century ago. Similar to the Sinocyclocheilus cavefish, the clearhead icefish has certain cavefish-like traits, such as transparent body and nearly scaleless skin. Here, we provide the whole genome sequence of this surface-dwelling fish and generated a draft genome assembly, aiming at exploring molecular mechanisms for the biological interests. A total of 252.1 gigabases (Gb) of raw reads were sequenced. Subsequently, a novel draft genome assembly was generated, with the scaffold N50 reaching 1.163 Mb. The genome completeness was estimated to be 98.39% by using the CEGMA evaluation. Finally, we annotated 19,884 protein-coding genes and observed that repeat sequences account for 24.43% of the genome assembly. The genome assembly will provide a solid foundation for further molecular breeding and germplasm resource protection in Chinese clearhead icefish, as well as other icefishes. It is also a valuable genetic resource for revealing the molecular mechanisms for the cavefish-like characters. |
format |
Dataset |
author |
Liu, Kai Dongpo Xu Li, Jia Bian, Chao Jinrong Duan Yanfeng Zhou Minying Zhang Xinxin You You, Yang Jieming Chen Yu, Hui Gangchun Xu Di-An Fang Qiang, Jun Shulun Jiang He, Jie Junmin Xu Shi, Qiong Zhiyong Zhang Pao Xu |
author_facet |
Liu, Kai Dongpo Xu Li, Jia Bian, Chao Jinrong Duan Yanfeng Zhou Minying Zhang Xinxin You You, Yang Jieming Chen Yu, Hui Gangchun Xu Di-An Fang Qiang, Jun Shulun Jiang He, Jie Junmin Xu Shi, Qiong Zhiyong Zhang Pao Xu |
author_sort |
Liu, Kai |
title |
Supporting data for "Whole genome sequencing of Chinese clearhead icefish, Protosalanx hyalocranius" |
title_short |
Supporting data for "Whole genome sequencing of Chinese clearhead icefish, Protosalanx hyalocranius" |
title_full |
Supporting data for "Whole genome sequencing of Chinese clearhead icefish, Protosalanx hyalocranius" |
title_fullStr |
Supporting data for "Whole genome sequencing of Chinese clearhead icefish, Protosalanx hyalocranius" |
title_full_unstemmed |
Supporting data for "Whole genome sequencing of Chinese clearhead icefish, Protosalanx hyalocranius" |
title_sort |
supporting data for "whole genome sequencing of chinese clearhead icefish, protosalanx hyalocranius" |
publisher |
GigaScience Database |
publishDate |
2016 |
url |
https://dx.doi.org/10.5524/100262 http://gigadb.org/dataset/100262 |
genre |
Icefish |
genre_facet |
Icefish |
op_rights |
CC0 1.0 Universal http://creativecommons.org/publicdomain/zero/1.0 |
op_rightsnorm |
CC0 |
op_doi |
https://doi.org/10.5524/100262 |
_version_ |
1766032520304918528 |