Complete Chloroplast Genome Sequences of Mongolia Medicine Artemisia frigida and Phylogenetic Relationships with Other Plants
Identifieur interne : 001233 ( Ncbi/Curation ); précédent : 001232; suivant : 001234Complete Chloroplast Genome Sequences of Mongolia Medicine Artemisia frigida and Phylogenetic Relationships with Other Plants
Auteurs : Yue Liu [République populaire de Chine, États-Unis] ; Naxin Huo [États-Unis] ; Lingli Dong [États-Unis] ; Yi Wang [États-Unis] ; Shuixian Zhang [République populaire de Chine] ; Hugh A. Young [États-Unis] ; Xiaoxiao Feng [République populaire de Chine] ; Yong Qiang Gu [États-Unis]Source :
- PLoS ONE [ 1932-6203 ] ; 2013.
Abstract
The complete chloroplast genome of
The chloroplast genome sequence of
Url:
DOI: 10.1371/journal.pone.0057533
PubMed: 23460871
PubMed Central: 3583863
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sort="Liu, Yue" uniqKey="Liu Y" first="Yue" last="Liu">Yue Liu</name><affiliation wicri:level="3"><nlm:aff id="aff1"><addr-line>College of Life and Environmental Sciences, Minzu University of China, Beijing, China</addr-line></nlm:aff><country xml:lang="fr">République populaire de Chine</country><wicri:regionArea>College of Life and Environmental Sciences, Minzu University of China, Beijing</wicri:regionArea><placeName><settlement type="city">Pékin</settlement></placeName></affiliation><affiliation wicri:level="3"><nlm:aff id="aff2"><addr-line>Institute of Chinese Materia Medica, China Academy of Traditional Chinese Medicine, Beijing, China</addr-line></nlm:aff><country xml:lang="fr">République populaire de Chine</country><wicri:regionArea>Institute of Chinese Materia Medica, China Academy of Traditional Chinese Medicine, Beijing</wicri:regionArea><placeName><settlement type="city">Pékin</settlement></placeName></affiliation><affiliation wicri:level="2"><nlm:aff 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first="Naxin" last="Huo">Naxin Huo</name><affiliation wicri:level="2"><nlm:aff id="aff3"><addr-line>Western Regional Research Center, Agricultural Research Service, United States Department of Agriculture (USDA-ARS), Albany, California, United States of America</addr-line></nlm:aff><country xml:lang="fr">États-Unis</country><wicri:regionArea>Western Regional Research Center, Agricultural Research Service, United States Department of Agriculture (USDA-ARS), Albany, California</wicri:regionArea><placeName><region type="state">Californie</region></placeName></affiliation></author><author><name sortKey="Dong, Lingli" sort="Dong, Lingli" uniqKey="Dong L" first="Lingli" last="Dong">Lingli Dong</name><affiliation wicri:level="2"><nlm:aff id="aff3"><addr-line>Western Regional Research Center, Agricultural Research Service, United States Department of Agriculture (USDA-ARS), Albany, California, United States of America</addr-line></nlm:aff><country xml:lang="fr">États-Unis</country><wicri:regionArea>Western Regional Research Center, Agricultural Research Service, United States Department of Agriculture (USDA-ARS), Albany, California</wicri:regionArea><placeName><region type="state">Californie</region></placeName></affiliation></author><author><name sortKey="Wang, Yi" sort="Wang, Yi" uniqKey="Wang Y" first="Yi" last="Wang">Yi Wang</name><affiliation wicri:level="2"><nlm:aff id="aff3"><addr-line>Western Regional Research Center, Agricultural Research Service, United States Department of Agriculture (USDA-ARS), Albany, California, United States of America</addr-line></nlm:aff><country xml:lang="fr">États-Unis</country><wicri:regionArea>Western Regional Research Center, Agricultural Research Service, United States Department of Agriculture (USDA-ARS), Albany, California</wicri:regionArea><placeName><region type="state">Californie</region></placeName></affiliation></author><author><name sortKey="Zhang, Shuixian" sort="Zhang, Shuixian" uniqKey="Zhang S" first="Shuixian" last="Zhang">Shuixian Zhang</name><affiliation wicri:level="3"><nlm:aff id="aff1"><addr-line>College of Life and Environmental Sciences, Minzu University of China, Beijing, China</addr-line></nlm:aff><country xml:lang="fr">République populaire de Chine</country><wicri:regionArea>College of Life and Environmental Sciences, Minzu University of China, Beijing</wicri:regionArea><placeName><settlement type="city">Pékin</settlement></placeName></affiliation><affiliation wicri:level="3"><nlm:aff id="aff5"><addr-line>Graduate School, Minzu University of China, Beijing, China</addr-line></nlm:aff><country xml:lang="fr">République populaire de Chine</country><wicri:regionArea>Graduate School, Minzu University of China, Beijing</wicri:regionArea><placeName><settlement type="city">Pékin</settlement></placeName></affiliation></author><author><name sortKey="Young, Hugh A" sort="Young, Hugh A" uniqKey="Young H" first="Hugh A." last="Young">Hugh A. Young</name><affiliation wicri:level="2"><nlm:aff id="aff3"><addr-line>Western Regional Research Center, Agricultural Research Service, United States Department of Agriculture (USDA-ARS), Albany, California, United States of America</addr-line></nlm:aff><country xml:lang="fr">États-Unis</country><wicri:regionArea>Western Regional Research Center, Agricultural Research Service, United States Department of Agriculture (USDA-ARS), Albany, California</wicri:regionArea><placeName><region type="state">Californie</region></placeName></affiliation></author><author><name sortKey="Feng, Xiaoxiao" sort="Feng, Xiaoxiao" uniqKey="Feng X" first="Xiaoxiao" last="Feng">Xiaoxiao Feng</name><affiliation wicri:level="3"><nlm:aff id="aff1"><addr-line>College of Life and Environmental Sciences, Minzu University of China, Beijing, China</addr-line></nlm:aff><country xml:lang="fr">République populaire de Chine</country><wicri:regionArea>College of Life and Environmental Sciences, Minzu University of China, Beijing</wicri:regionArea><placeName><settlement type="city">Pékin</settlement></placeName></affiliation><affiliation wicri:level="3"><nlm:aff id="aff5"><addr-line>Graduate School, Minzu University of China, Beijing, China</addr-line></nlm:aff><country xml:lang="fr">République populaire de Chine</country><wicri:regionArea>Graduate School, Minzu University of China, Beijing</wicri:regionArea><placeName><settlement type="city">Pékin</settlement></placeName></affiliation></author><author><name sortKey="Gu, Yong Qiang" sort="Gu, Yong Qiang" uniqKey="Gu Y" first="Yong Qiang" last="Gu">Yong Qiang Gu</name><affiliation wicri:level="2"><nlm:aff id="aff3"><addr-line>Western Regional Research Center, Agricultural Research Service, United States Department of Agriculture (USDA-ARS), Albany, California, United States of America</addr-line></nlm:aff><country xml:lang="fr">États-Unis</country><wicri:regionArea>Western Regional Research Center, Agricultural Research Service, United States Department of Agriculture (USDA-ARS), Albany, California</wicri:regionArea><placeName><region type="state">Californie</region></placeName></affiliation></author></analytic><series><title level="j">PLoS ONE</title><idno type="eISSN">1932-6203</idno><imprint><date when="2013">2013</date></imprint></series></biblStruct></sourceDesc></fileDesc><profileDesc><textClass></textClass></profileDesc></teiHeader><front><div type="abstract" xml:lang="en"><sec><title>Background</title><p><italic>Artemisia frigida</italic> Willd. is an important Mongolian traditional medicinal plant with pharmacological functions of stanch and detumescence. However, there is little sequence and genomic information available for <italic>Artemisia frigida</italic>, which makes phylogenetic identification, evolutionary studies, and genetic improvement of its value very difficult. We report the complete chloroplast genome sequence of <italic>Artemisia frigida</italic> based on 454 pyrosequencing.</p></sec><sec><title>Methodology/Principal Findings</title><p>The complete chloroplast genome of <italic>Artemisia frigida</italic> is 151,076 bp including a large single copy (LSC) region of 82,740 bp, a small single copy (SSC) region of 18,394 bp and a pair of inverted repeats (IRs) of 24,971 bp. The genome contains 114 unique genes and 18 duplicated genes. The chloroplast genome of <italic>Artemisia frigida</italic> contains a small 3.4 kb inversion within a large 23 kb inversion in the LSC region, a unique feature in Asteraceae. The gene order in the SSC region of <italic>Artemisia frigida</italic> is inverted compared with the other 6 Asteraceae species with the chloroplast genomes sequenced. This inversion is likely caused by an intramolecular recombination event only occurred in <italic>Artemisia frigida</italic>. The existence of rich SSR loci in the <italic>Artemisia frigida</italic> chloroplast genome provides a rare opportunity to study population genetics of this Mongolian medicinal plant. Phylogenetic analysis demonstrates a sister relationship between <italic>Artemisia frigida</italic> and four other species in Asteraceae, including <italic>Ageratina adenophora, Helianthus annuus, Guizotia abyssinica</italic> and <italic>Lactuca sativa,</italic> based on 61 protein-coding sequences. Furthermore, <italic>Artemisia frigida</italic> was placed in the tribe Anthemideae in the subfamily Asteroideae (Asteraceae) based on <italic>ndhF</italic> and <italic>trnL-F</italic> sequence comparisons.</p></sec><sec><title>Conclusion</title><p>The chloroplast genome sequence of <italic>Artemisia frigida</italic> was assembled and analyzed in this study, representing the first plastid genome sequenced in the Anthemideae tribe. This complete chloroplast genome sequence will be useful for molecular ecology and molecular phylogeny studies within <italic>Artemisia</italic> species and also within the Asteraceae family.</p></sec></div></front><back><div1 type="bibliography"><listBibl><biblStruct><analytic><author><name sortKey="Liu, Y" uniqKey="Liu Y">Y Liu</name></author><author><name sortKey="Liu, J" uniqKey="Liu J">J Liu</name></author><author><name sortKey="Tang, L" uniqKey="Tang L">L Tang</name></author><author><name sortKey="Zhang, W" uniqKey="Zhang W">W Zhang</name></author><author><name sortKey="Zhang, L" uniqKey="Zhang L">L Zhang</name></author></analytic></biblStruct><biblStruct></biblStruct><biblStruct><analytic><author><name sortKey="Garcia, S" uniqKey="Garcia S">S Garcia</name></author><author><name sortKey="Sanz, M" uniqKey="Sanz M">M Sanz</name></author><author><name sortKey="Garnatje, T" uniqKey="Garnatje T">T Garnatje</name></author><author><name sortKey="Kreitschitz, A" uniqKey="Kreitschitz A">A 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Jh" uniqKey="Lee J">JH Lee</name></author><author><name sortKey="Lee, Jw" uniqKey="Lee J">JW Lee</name></author><author><name sortKey="Sung, Js" uniqKey="Sung J">JS Sung</name></author><author><name sortKey="Bang, Kh" uniqKey="Bang K">KH Bang</name></author><author><name sortKey="Moon, Sg" uniqKey="Moon S">SG Moon</name></author></analytic></biblStruct><biblStruct><analytic><author><name sortKey="Tamura, K" uniqKey="Tamura K">K Tamura</name></author><author><name sortKey="Nei, M" uniqKey="Nei M">M Nei</name></author></analytic></biblStruct><biblStruct><analytic><author><name sortKey="Daniell, H" uniqKey="Daniell H">H Daniell</name></author><author><name sortKey="Lee, Sb" uniqKey="Lee S">SB Lee</name></author><author><name sortKey="Grevich, J" uniqKey="Grevich J">J Grevich</name></author><author><name sortKey="Saski, C" uniqKey="Saski C">C Saski</name></author><author><name sortKey="Quesada Vargas, T" uniqKey="Quesada Vargas T">T 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