Complete chloroplast genome sequence of a major invasive species, crofton weed (Ageratina adenophora).
<h4>Background</h4>Crofton weed (Ageratina adenophora) is one of the most hazardous invasive plant species, which causes serious economic losses and environmental damages worldwide. However, the sequence resource and genome information of A. adenophora are rather limited, making phylogen...
Guardado en:
Autores principales: | , , , , , , , , |
---|---|
Formato: | article |
Lenguaje: | EN |
Publicado: |
Public Library of Science (PLoS)
2012
|
Materias: | |
Acceso en línea: | https://doaj.org/article/8c272d73be3d4f8eb7a3f6fa0aa079e9 |
Etiquetas: |
Agregar Etiqueta
Sin Etiquetas, Sea el primero en etiquetar este registro!
|
id |
oai:doaj.org-article:8c272d73be3d4f8eb7a3f6fa0aa079e9 |
---|---|
record_format |
dspace |
spelling |
oai:doaj.org-article:8c272d73be3d4f8eb7a3f6fa0aa079e92021-11-18T07:19:05ZComplete chloroplast genome sequence of a major invasive species, crofton weed (Ageratina adenophora).1932-620310.1371/journal.pone.0036869https://doaj.org/article/8c272d73be3d4f8eb7a3f6fa0aa079e92012-01-01T00:00:00Zhttps://www.ncbi.nlm.nih.gov/pmc/articles/pmid/22606302/?tool=EBIhttps://doaj.org/toc/1932-6203<h4>Background</h4>Crofton weed (Ageratina adenophora) is one of the most hazardous invasive plant species, which causes serious economic losses and environmental damages worldwide. However, the sequence resource and genome information of A. adenophora are rather limited, making phylogenetic identification and evolutionary studies very difficult. Here, we report the complete sequence of the A. adenophora chloroplast (cp) genome based on Illumina sequencing.<h4>Methodology/principal findings</h4>The A. adenophora cp genome is 150, 689 bp in length including a small single-copy (SSC) region of 18, 358 bp and a large single-copy (LSC) region of 84, 815 bp separated by a pair of inverted repeats (IRs) of 23, 755 bp. The genome contains 130 unique genes and 18 duplicated in the IR regions, with the gene content and organization similar to other Asteraceae cp genomes. Comparative analysis identified five DNA regions (ndhD-ccsA, psbI-trnS, ndhF-ycf1, ndhI-ndhG and atpA-trnR) containing parsimony-informative characters higher than 2%, which may be potential informative markers for barcoding and phylogenetic analysis. Repeat structure, codon usage and contraction of the IR were also investigated to reveal the pattern of evolution. Phylogenetic analysis demonstrated a sister relationship between A. adenophora and Guizotia abyssinica and supported a monophyly of the Asterales.<h4>Conclusion</h4>We have assembled and analyzed the chloroplast genome of A. adenophora in this study, which was the first sequenced plastome in the Eupatorieae tribe. The complete chloroplast genome information is useful for plant phylogenetic and evolutionary studies within this invasive species and also within the Asteraceae family.Xiaojun NieShuzuo LvYingxin ZhangXianghong DuLe WangSiddanagouda S BiradarXiufang TanFanghao WanSong WeiningPublic Library of Science (PLoS)articleMedicineRScienceQENPLoS ONE, Vol 7, Iss 5, p e36869 (2012) |
institution |
DOAJ |
collection |
DOAJ |
language |
EN |
topic |
Medicine R Science Q |
spellingShingle |
Medicine R Science Q Xiaojun Nie Shuzuo Lv Yingxin Zhang Xianghong Du Le Wang Siddanagouda S Biradar Xiufang Tan Fanghao Wan Song Weining Complete chloroplast genome sequence of a major invasive species, crofton weed (Ageratina adenophora). |
description |
<h4>Background</h4>Crofton weed (Ageratina adenophora) is one of the most hazardous invasive plant species, which causes serious economic losses and environmental damages worldwide. However, the sequence resource and genome information of A. adenophora are rather limited, making phylogenetic identification and evolutionary studies very difficult. Here, we report the complete sequence of the A. adenophora chloroplast (cp) genome based on Illumina sequencing.<h4>Methodology/principal findings</h4>The A. adenophora cp genome is 150, 689 bp in length including a small single-copy (SSC) region of 18, 358 bp and a large single-copy (LSC) region of 84, 815 bp separated by a pair of inverted repeats (IRs) of 23, 755 bp. The genome contains 130 unique genes and 18 duplicated in the IR regions, with the gene content and organization similar to other Asteraceae cp genomes. Comparative analysis identified five DNA regions (ndhD-ccsA, psbI-trnS, ndhF-ycf1, ndhI-ndhG and atpA-trnR) containing parsimony-informative characters higher than 2%, which may be potential informative markers for barcoding and phylogenetic analysis. Repeat structure, codon usage and contraction of the IR were also investigated to reveal the pattern of evolution. Phylogenetic analysis demonstrated a sister relationship between A. adenophora and Guizotia abyssinica and supported a monophyly of the Asterales.<h4>Conclusion</h4>We have assembled and analyzed the chloroplast genome of A. adenophora in this study, which was the first sequenced plastome in the Eupatorieae tribe. The complete chloroplast genome information is useful for plant phylogenetic and evolutionary studies within this invasive species and also within the Asteraceae family. |
format |
article |
author |
Xiaojun Nie Shuzuo Lv Yingxin Zhang Xianghong Du Le Wang Siddanagouda S Biradar Xiufang Tan Fanghao Wan Song Weining |
author_facet |
Xiaojun Nie Shuzuo Lv Yingxin Zhang Xianghong Du Le Wang Siddanagouda S Biradar Xiufang Tan Fanghao Wan Song Weining |
author_sort |
Xiaojun Nie |
title |
Complete chloroplast genome sequence of a major invasive species, crofton weed (Ageratina adenophora). |
title_short |
Complete chloroplast genome sequence of a major invasive species, crofton weed (Ageratina adenophora). |
title_full |
Complete chloroplast genome sequence of a major invasive species, crofton weed (Ageratina adenophora). |
title_fullStr |
Complete chloroplast genome sequence of a major invasive species, crofton weed (Ageratina adenophora). |
title_full_unstemmed |
Complete chloroplast genome sequence of a major invasive species, crofton weed (Ageratina adenophora). |
title_sort |
complete chloroplast genome sequence of a major invasive species, crofton weed (ageratina adenophora). |
publisher |
Public Library of Science (PLoS) |
publishDate |
2012 |
url |
https://doaj.org/article/8c272d73be3d4f8eb7a3f6fa0aa079e9 |
work_keys_str_mv |
AT xiaojunnie completechloroplastgenomesequenceofamajorinvasivespeciescroftonweedageratinaadenophora AT shuzuolv completechloroplastgenomesequenceofamajorinvasivespeciescroftonweedageratinaadenophora AT yingxinzhang completechloroplastgenomesequenceofamajorinvasivespeciescroftonweedageratinaadenophora AT xianghongdu completechloroplastgenomesequenceofamajorinvasivespeciescroftonweedageratinaadenophora AT lewang completechloroplastgenomesequenceofamajorinvasivespeciescroftonweedageratinaadenophora AT siddanagoudasbiradar completechloroplastgenomesequenceofamajorinvasivespeciescroftonweedageratinaadenophora AT xiufangtan completechloroplastgenomesequenceofamajorinvasivespeciescroftonweedageratinaadenophora AT fanghaowan completechloroplastgenomesequenceofamajorinvasivespeciescroftonweedageratinaadenophora AT songweining completechloroplastgenomesequenceofamajorinvasivespeciescroftonweedageratinaadenophora |
_version_ |
1718423610169753600 |