Genome of the Southern Giant Petrel Assembled Using Third-Generation DNA Sequencing and Linked Reads Reveals Evolutionary Traits of Southern Avian
The southern giant petrel Macronectes giganteus, a large seabird of the southern oceans, is one of only two members of the genus Macronectes and is the largest species in the order Procellariiformes. Although these two families account for the vast majority of the avian fauna inhabiting the Antarcti...
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ftmdpi:oai:mdpi.com:/2076-2615/11/7/2046/ 2023-08-20T03:59:51+02:00 Genome of the Southern Giant Petrel Assembled Using Third-Generation DNA Sequencing and Linked Reads Reveals Evolutionary Traits of Southern Avian Sun-Hee Kim Seung-Jae Lee Euna Jo Jangyeon Kim Jong-U Kim Jeong-Hoon Kim Hyun Park Young-Min Chi agris 2021-07-09 application/pdf https://doi.org/10.3390/ani11072046 EN eng Multidisciplinary Digital Publishing Institute Animal Genetics and Genomics https://dx.doi.org/10.3390/ani11072046 https://creativecommons.org/licenses/by/4.0/ Animals; Volume 11; Issue 7; Pages: 2046 southern giant petrel Macronectes giganteus genome assembly annotation PacBio sequencing 10x Genomics Chromium technology Text 2021 ftmdpi https://doi.org/10.3390/ani11072046 2023-08-01T02:09:05Z The southern giant petrel Macronectes giganteus, a large seabird of the southern oceans, is one of only two members of the genus Macronectes and is the largest species in the order Procellariiformes. Although these two families account for the vast majority of the avian fauna inhabiting the Antarctic and sub-Antarctic regions, studies on the status of some populations and the associated genetic data are currently extremely limited. In this study, we assembled the genome of M. giganteus by integrating Pacific Biosciences single-molecule real-time sequencing and the Chromium system developed by 10x Genomics. The final M. giganteus genome assembly was 1.248 Gb in size with a scaffold N50 length of 27.4 Mb and a longest scaffold length of 120.4 Mb. The M. giganteus genome contains 14,993 predicted protein-coding genes and has 11.06% repeat sequences. Estimated historical effective population size analysis indicated that the southern giant petrel underwent a severe reduction in effective population size during a period coinciding with the early Pleistocene. The availability of this newly sequenced genome will facilitate more effective genetic monitoring of threatened species. Furthermore, the genome will provide a valuable resource for gene functional studies and further comparative genomic studies on the life history and ecological traits of specific avian species. Text Antarc* Antarctic Giant Petrel Macronectes giganteus MDPI Open Access Publishing Antarctic Giganteus ENVELOPE(62.500,62.500,-67.567,-67.567) Pacific The Antarctic Animals 11 7 2046 |
institution |
Open Polar |
collection |
MDPI Open Access Publishing |
op_collection_id |
ftmdpi |
language |
English |
topic |
southern giant petrel Macronectes giganteus genome assembly annotation PacBio sequencing 10x Genomics Chromium technology |
spellingShingle |
southern giant petrel Macronectes giganteus genome assembly annotation PacBio sequencing 10x Genomics Chromium technology Sun-Hee Kim Seung-Jae Lee Euna Jo Jangyeon Kim Jong-U Kim Jeong-Hoon Kim Hyun Park Young-Min Chi Genome of the Southern Giant Petrel Assembled Using Third-Generation DNA Sequencing and Linked Reads Reveals Evolutionary Traits of Southern Avian |
topic_facet |
southern giant petrel Macronectes giganteus genome assembly annotation PacBio sequencing 10x Genomics Chromium technology |
description |
The southern giant petrel Macronectes giganteus, a large seabird of the southern oceans, is one of only two members of the genus Macronectes and is the largest species in the order Procellariiformes. Although these two families account for the vast majority of the avian fauna inhabiting the Antarctic and sub-Antarctic regions, studies on the status of some populations and the associated genetic data are currently extremely limited. In this study, we assembled the genome of M. giganteus by integrating Pacific Biosciences single-molecule real-time sequencing and the Chromium system developed by 10x Genomics. The final M. giganteus genome assembly was 1.248 Gb in size with a scaffold N50 length of 27.4 Mb and a longest scaffold length of 120.4 Mb. The M. giganteus genome contains 14,993 predicted protein-coding genes and has 11.06% repeat sequences. Estimated historical effective population size analysis indicated that the southern giant petrel underwent a severe reduction in effective population size during a period coinciding with the early Pleistocene. The availability of this newly sequenced genome will facilitate more effective genetic monitoring of threatened species. Furthermore, the genome will provide a valuable resource for gene functional studies and further comparative genomic studies on the life history and ecological traits of specific avian species. |
format |
Text |
author |
Sun-Hee Kim Seung-Jae Lee Euna Jo Jangyeon Kim Jong-U Kim Jeong-Hoon Kim Hyun Park Young-Min Chi |
author_facet |
Sun-Hee Kim Seung-Jae Lee Euna Jo Jangyeon Kim Jong-U Kim Jeong-Hoon Kim Hyun Park Young-Min Chi |
author_sort |
Sun-Hee Kim |
title |
Genome of the Southern Giant Petrel Assembled Using Third-Generation DNA Sequencing and Linked Reads Reveals Evolutionary Traits of Southern Avian |
title_short |
Genome of the Southern Giant Petrel Assembled Using Third-Generation DNA Sequencing and Linked Reads Reveals Evolutionary Traits of Southern Avian |
title_full |
Genome of the Southern Giant Petrel Assembled Using Third-Generation DNA Sequencing and Linked Reads Reveals Evolutionary Traits of Southern Avian |
title_fullStr |
Genome of the Southern Giant Petrel Assembled Using Third-Generation DNA Sequencing and Linked Reads Reveals Evolutionary Traits of Southern Avian |
title_full_unstemmed |
Genome of the Southern Giant Petrel Assembled Using Third-Generation DNA Sequencing and Linked Reads Reveals Evolutionary Traits of Southern Avian |
title_sort |
genome of the southern giant petrel assembled using third-generation dna sequencing and linked reads reveals evolutionary traits of southern avian |
publisher |
Multidisciplinary Digital Publishing Institute |
publishDate |
2021 |
url |
https://doi.org/10.3390/ani11072046 |
op_coverage |
agris |
long_lat |
ENVELOPE(62.500,62.500,-67.567,-67.567) |
geographic |
Antarctic Giganteus Pacific The Antarctic |
geographic_facet |
Antarctic Giganteus Pacific The Antarctic |
genre |
Antarc* Antarctic Giant Petrel Macronectes giganteus |
genre_facet |
Antarc* Antarctic Giant Petrel Macronectes giganteus |
op_source |
Animals; Volume 11; Issue 7; Pages: 2046 |
op_relation |
Animal Genetics and Genomics https://dx.doi.org/10.3390/ani11072046 |
op_rights |
https://creativecommons.org/licenses/by/4.0/ |
op_doi |
https://doi.org/10.3390/ani11072046 |
container_title |
Animals |
container_volume |
11 |
container_issue |
7 |
container_start_page |
2046 |
_version_ |
1774715923233505280 |