Selected Lark Mitochondrial Genomes Provide Insights into the Evolution of Second Control Region with Tandem Repeats in Alaudidae (Aves, Passeriformes)
The control region ( CR ) regulates the replication and transcription of the mitochondrial genome (mitogenome). Some avian mitogenomes possess two CRs , and the second control region ( CR2 ) may enhance replication and transcription; however, the CR2 in lark mitogenome appears to be undergoing loss...
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ftdoajarticles:oai:doaj.org/article:b7075b87211140079ff46590c650aa50 2024-09-15T18:04:53+00:00 Selected Lark Mitochondrial Genomes Provide Insights into the Evolution of Second Control Region with Tandem Repeats in Alaudidae (Aves, Passeriformes) Chuan Jiang Hui Kang Yang Zhou Wenwen Zhu Xilong Zhao Nassoro Mohamed Bo Li 2024-07-01T00:00:00Z https://doi.org/10.3390/life14070881 https://doaj.org/article/b7075b87211140079ff46590c650aa50 EN eng MDPI AG https://www.mdpi.com/2075-1729/14/7/881 https://doaj.org/toc/2075-1729 doi:10.3390/life14070881 2075-1729 https://doaj.org/article/b7075b87211140079ff46590c650aa50 Life, Vol 14, Iss 7, p 881 (2024) Alaudidae mitochondrial genome phylogeny gene rearrangement tandem repeat slipped-strand mispairing Science Q article 2024 ftdoajarticles https://doi.org/10.3390/life14070881 2024-08-05T17:48:50Z The control region ( CR ) regulates the replication and transcription of the mitochondrial genome (mitogenome). Some avian mitogenomes possess two CRs , and the second control region ( CR2 ) may enhance replication and transcription; however, the CR2 in lark mitogenome appears to be undergoing loss and is accompanied by tandem repeats. Here, we characterized six lark mitogenomes from Alaudala cheleensis , Eremophila alpestris , Alauda razae , and Calandrella cinerea and reconstructed the phylogeny of Passerida. Through further comparative analysis among larks, we traced the evolutionary process of CR2 . The mitochondrial gene orders were conserved in all published lark mitogenomes, with Cytb-trnT-CR1-trnP-ND6-trnE-remnant CR2 with tandem repeat- trnF-rrnS . Phylogenetic analysis revealed Alaudidae and Panuridae are sister groups at the base of Sylvioidea, and sporadic losses of CR2 may occur in their common ancestor. CR sequence and phylogeny analysis indicated CR2 tandem repeats were generated within CR2 , originating in the ancestor of all larks, rather than inherited from CR1 . The secondary structure comparison of tandem repeat units within and between species suggested slipped-strand mispairing and DNA turnover as suitable models for explaining the origin and evolution of these repeats. This study reveals the evolutionary process of the CR2 containing tandem repeat in Alaudidae, providing reference for understanding the evolutionary characteristics and dynamics of tandem repeats. Article in Journal/Newspaper Eremophila alpestris Directory of Open Access Journals: DOAJ Articles Life 14 7 881 |
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Open Polar |
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Directory of Open Access Journals: DOAJ Articles |
op_collection_id |
ftdoajarticles |
language |
English |
topic |
Alaudidae mitochondrial genome phylogeny gene rearrangement tandem repeat slipped-strand mispairing Science Q |
spellingShingle |
Alaudidae mitochondrial genome phylogeny gene rearrangement tandem repeat slipped-strand mispairing Science Q Chuan Jiang Hui Kang Yang Zhou Wenwen Zhu Xilong Zhao Nassoro Mohamed Bo Li Selected Lark Mitochondrial Genomes Provide Insights into the Evolution of Second Control Region with Tandem Repeats in Alaudidae (Aves, Passeriformes) |
topic_facet |
Alaudidae mitochondrial genome phylogeny gene rearrangement tandem repeat slipped-strand mispairing Science Q |
description |
The control region ( CR ) regulates the replication and transcription of the mitochondrial genome (mitogenome). Some avian mitogenomes possess two CRs , and the second control region ( CR2 ) may enhance replication and transcription; however, the CR2 in lark mitogenome appears to be undergoing loss and is accompanied by tandem repeats. Here, we characterized six lark mitogenomes from Alaudala cheleensis , Eremophila alpestris , Alauda razae , and Calandrella cinerea and reconstructed the phylogeny of Passerida. Through further comparative analysis among larks, we traced the evolutionary process of CR2 . The mitochondrial gene orders were conserved in all published lark mitogenomes, with Cytb-trnT-CR1-trnP-ND6-trnE-remnant CR2 with tandem repeat- trnF-rrnS . Phylogenetic analysis revealed Alaudidae and Panuridae are sister groups at the base of Sylvioidea, and sporadic losses of CR2 may occur in their common ancestor. CR sequence and phylogeny analysis indicated CR2 tandem repeats were generated within CR2 , originating in the ancestor of all larks, rather than inherited from CR1 . The secondary structure comparison of tandem repeat units within and between species suggested slipped-strand mispairing and DNA turnover as suitable models for explaining the origin and evolution of these repeats. This study reveals the evolutionary process of the CR2 containing tandem repeat in Alaudidae, providing reference for understanding the evolutionary characteristics and dynamics of tandem repeats. |
format |
Article in Journal/Newspaper |
author |
Chuan Jiang Hui Kang Yang Zhou Wenwen Zhu Xilong Zhao Nassoro Mohamed Bo Li |
author_facet |
Chuan Jiang Hui Kang Yang Zhou Wenwen Zhu Xilong Zhao Nassoro Mohamed Bo Li |
author_sort |
Chuan Jiang |
title |
Selected Lark Mitochondrial Genomes Provide Insights into the Evolution of Second Control Region with Tandem Repeats in Alaudidae (Aves, Passeriformes) |
title_short |
Selected Lark Mitochondrial Genomes Provide Insights into the Evolution of Second Control Region with Tandem Repeats in Alaudidae (Aves, Passeriformes) |
title_full |
Selected Lark Mitochondrial Genomes Provide Insights into the Evolution of Second Control Region with Tandem Repeats in Alaudidae (Aves, Passeriformes) |
title_fullStr |
Selected Lark Mitochondrial Genomes Provide Insights into the Evolution of Second Control Region with Tandem Repeats in Alaudidae (Aves, Passeriformes) |
title_full_unstemmed |
Selected Lark Mitochondrial Genomes Provide Insights into the Evolution of Second Control Region with Tandem Repeats in Alaudidae (Aves, Passeriformes) |
title_sort |
selected lark mitochondrial genomes provide insights into the evolution of second control region with tandem repeats in alaudidae (aves, passeriformes) |
publisher |
MDPI AG |
publishDate |
2024 |
url |
https://doi.org/10.3390/life14070881 https://doaj.org/article/b7075b87211140079ff46590c650aa50 |
genre |
Eremophila alpestris |
genre_facet |
Eremophila alpestris |
op_source |
Life, Vol 14, Iss 7, p 881 (2024) |
op_relation |
https://www.mdpi.com/2075-1729/14/7/881 https://doaj.org/toc/2075-1729 doi:10.3390/life14070881 2075-1729 https://doaj.org/article/b7075b87211140079ff46590c650aa50 |
op_doi |
https://doi.org/10.3390/life14070881 |
container_title |
Life |
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14 |
container_issue |
7 |
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881 |
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1810442493330718720 |