PoplarV1, Main, Exploration, bibRecord, 000868

Intergeneric Relationships within the Family Salicaceae s.l. based on Plastid Phylogenomics.

Identifieur interne : 000868 ( Main/Exploration ); précédent : 000867; suivant : 000869

Intergeneric Relationships within the Family Salicaceae s.l. based on Plastid Phylogenomics.

Auteurs : Meng-Meng Li [République populaire de Chine] ; De-Yan Wang [République populaire de Chine] ; Lei Zhang [République populaire de Chine] ; Ming-Hui Kang [République populaire de Chine] ; Zhi-Qiang Lu [République populaire de Chine] ; Ren-Bin Zhu [République populaire de Chine] ; Xing-Xing Mao [République populaire de Chine] ; Zhen-Xiang Xi [République populaire de Chine] ; Ma Tao [République populaire de Chine]

Source :

International journal of molecular sciences [ 1422-0067 ] ; 2019.

RBID : pubmed:31382526

Descripteurs français

KwdFr :
- Génome plastidique (MeSH), Phylogenèse (MeSH), Plastes (génétique), Répétitions microsatellites (MeSH), Salicaceae (génétique), Séquences répétées inversées (MeSH), Évolution moléculaire (MeSH).
MESH :
- génétique : Plastes, Salicaceae.
- Génome plastidique, Phylogenèse, Répétitions microsatellites, Séquences répétées inversées, Évolution moléculaire.

English descriptors

KwdEn :
- Evolution, Molecular (MeSH), Genome, Plastid (MeSH), Inverted Repeat Sequences (MeSH), Microsatellite Repeats (MeSH), Phylogeny (MeSH), Plastids (genetics), Salicaceae (genetics).
MESH :
- genetics : Plastids, Salicaceae.
- Evolution, Molecular, Genome, Plastid, Inverted Repeat Sequences, Microsatellite Repeats, Phylogeny.

Abstract

Many Salicaceae s.l. plants are recognized for their important role in the production of products such as wood, oils, and medicines, and as a model organism in life studies. However, the difference in plastid sequence, phylogenetic relationships, and lineage diversification of the family Salicaceae s.l. remain poorly understood. In this study, we compare 24 species representing 18 genera of the family. Simple sequence repeats (SSRs) are considered effective molecular markers for plant species identification and population genetics. Among them, a total of 1798 SSRs were identified, among which mononucleotide repeat was the most common with 1455 accounts representing 80.92% of the total. Most of the SSRs are located in the non-coding region. We also identified five other types of repeats, including 1750 tandems, 434 forward, 407 palindromic, 86 reverse, and 30 complementary repeats. The species in Salicaceae s.l. have a conserved plastid genome. Each plastome presented a typical quadripartite structure and varied in size due to the expansion and contraction of the inverted repeat (IR) boundary, lacking major structural variations, but we identified six divergence hotspot regions. We obtained phylogenetic relationships of 18 genera in Salicaceae s.l. and the 24 species formed a highly supported lineage. Casearia was identified as the basal clade. The divergence time between Salicaceae s.l. and the outgroup was estimated as ~93 Mya; Salix, and Populus diverged around 34 Mya, consistent with the previously reported time. Our research will contribute to a better understanding of the phylogenetic relationships among the members of the Salicaceae s.l.

DOI: 10.3390/ijms20153788
PubMed: 31382526
PubMed Central: PMC6696080

Affiliations:

République populaire de Chine

Links toward previous steps (curation, corpus...)

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Le document en format XML

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<author><name sortKey="Kang, Ming Hui" sort="Kang, Ming Hui" uniqKey="Kang M" first="Ming-Hui" last="Kang">Ming-Hui Kang</name>
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<author><name sortKey="Lu, Zhi Qiang" sort="Lu, Zhi Qiang" uniqKey="Lu Z" first="Zhi-Qiang" last="Lu">Zhi-Qiang Lu</name>
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<profileDesc><textClass><keywords scheme="KwdEn" xml:lang="en"><term>Evolution, Molecular (MeSH)</term>
<term>Genome, Plastid (MeSH)</term>
<term>Inverted Repeat Sequences (MeSH)</term>
<term>Microsatellite Repeats (MeSH)</term>
<term>Phylogeny (MeSH)</term>
<term>Plastids (genetics)</term>
<term>Salicaceae (genetics)</term>
</keywords>
<keywords scheme="KwdFr" xml:lang="fr"><term>Génome plastidique (MeSH)</term>
<term>Phylogenèse (MeSH)</term>
<term>Plastes (génétique)</term>
<term>Répétitions microsatellites (MeSH)</term>
<term>Salicaceae (génétique)</term>
<term>Séquences répétées inversées (MeSH)</term>
<term>Évolution moléculaire (MeSH)</term>
</keywords>
<keywords scheme="MESH" qualifier="genetics" xml:lang="en"><term>Plastids</term>
<term>Salicaceae</term>
</keywords>
<keywords scheme="MESH" qualifier="génétique" xml:lang="fr"><term>Plastes</term>
<term>Salicaceae</term>
</keywords>
<keywords scheme="MESH" xml:lang="en"><term>Evolution, Molecular</term>
<term>Genome, Plastid</term>
<term>Inverted Repeat Sequences</term>
<term>Microsatellite Repeats</term>
<term>Phylogeny</term>
</keywords>
<keywords scheme="MESH" xml:lang="fr"><term>Génome plastidique</term>
<term>Phylogenèse</term>
<term>Répétitions microsatellites</term>
<term>Séquences répétées inversées</term>
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<front><div type="abstract" xml:lang="en">Many Salicaceae <i>s.l.</i>
 plants are recognized for their important role in the production of products such as wood, oils, and medicines, and as a model organism in life studies. However, the difference in plastid sequence, phylogenetic relationships, and lineage diversification of the family Salicaceae <i>s.l.</i>
 remain poorly understood. In this study, we compare 24 species representing 18 genera of the family. Simple sequence repeats (SSRs) are considered effective molecular markers for plant species identification and population genetics. Among them, a total of 1798 SSRs were identified, among which mononucleotide repeat was the most common with 1455 accounts representing 80.92% of the total. Most of the SSRs are located in the non-coding region. We also identified five other types of repeats, including 1750 tandems, 434 forward, 407 palindromic, 86 reverse, and 30 complementary repeats. The species in Salicaceae <i>s.l.</i>
 have a conserved plastid genome. Each plastome presented a typical quadripartite structure and varied in size due to the expansion and contraction of the inverted repeat (IR) boundary, lacking major structural variations, but we identified six divergence hotspot regions. We obtained phylogenetic relationships of 18 genera in Salicaceae <i>s.l.</i>
 and the 24 species formed a highly supported lineage. <i>Casearia</i>
 was identified as the basal clade. The divergence time between Salicaceae <i>s.l.</i>
 and the outgroup was estimated as ~93 Mya; <i>Salix</i>
<i>,</i>
 and <i>Populus</i>
 diverged around 34 Mya, consistent with the previously reported time. Our research will contribute to a better understanding of the phylogenetic relationships among the members of the Salicaceae <i>s.l.</i>
</div>
</front>
</TEI>
<pubmed><MedlineCitation Status="MEDLINE" Owner="NLM"><PMID Version="1">31382526</PMID>
<DateCompleted><Year>2020</Year>
<Month>01</Month>
<Day>06</Day>
</DateCompleted>
<DateRevised><Year>2020</Year>
<Month>02</Month>
<Day>25</Day>
</DateRevised>
<Article PubModel="Electronic"><Journal><ISSN IssnType="Electronic">1422-0067</ISSN>
<JournalIssue CitedMedium="Internet"><Volume>20</Volume>
<Issue>15</Issue>
<PubDate><Year>2019</Year>
<Month>Aug</Month>
<Day>02</Day>
</PubDate>
</JournalIssue>
<Title>International journal of molecular sciences</Title>
<ISOAbbreviation>Int J Mol Sci</ISOAbbreviation>
</Journal>
<ArticleTitle>Intergeneric Relationships within the Family Salicaceae <i>s.l.</i>
 based on Plastid Phylogenomics.</ArticleTitle>
<ELocationID EIdType="pii" ValidYN="Y">E3788</ELocationID>
<ELocationID EIdType="doi" ValidYN="Y">10.3390/ijms20153788</ELocationID>
<Abstract><AbstractText>Many Salicaceae <i>s.l.</i>
 plants are recognized for their important role in the production of products such as wood, oils, and medicines, and as a model organism in life studies. However, the difference in plastid sequence, phylogenetic relationships, and lineage diversification of the family Salicaceae <i>s.l.</i>
 remain poorly understood. In this study, we compare 24 species representing 18 genera of the family. Simple sequence repeats (SSRs) are considered effective molecular markers for plant species identification and population genetics. Among them, a total of 1798 SSRs were identified, among which mononucleotide repeat was the most common with 1455 accounts representing 80.92% of the total. Most of the SSRs are located in the non-coding region. We also identified five other types of repeats, including 1750 tandems, 434 forward, 407 palindromic, 86 reverse, and 30 complementary repeats. The species in Salicaceae <i>s.l.</i>
 have a conserved plastid genome. Each plastome presented a typical quadripartite structure and varied in size due to the expansion and contraction of the inverted repeat (IR) boundary, lacking major structural variations, but we identified six divergence hotspot regions. We obtained phylogenetic relationships of 18 genera in Salicaceae <i>s.l.</i>
 and the 24 species formed a highly supported lineage. <i>Casearia</i>
 was identified as the basal clade. The divergence time between Salicaceae <i>s.l.</i>
 and the outgroup was estimated as ~93 Mya; <i>Salix</i>
<i>,</i>
 and <i>Populus</i>
 diverged around 34 Mya, consistent with the previously reported time. Our research will contribute to a better understanding of the phylogenetic relationships among the members of the Salicaceae <i>s.l.</i>
</AbstractText>
</Abstract>
<AuthorList CompleteYN="Y"><Author ValidYN="Y"><LastName>Li</LastName>
<ForeName>Meng-Meng</ForeName>
<Initials>MM</Initials>
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</AffiliationInfo>
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<Author ValidYN="Y"><LastName>Wang</LastName>
<ForeName>De-Yan</ForeName>
<Initials>DY</Initials>
<AffiliationInfo><Affiliation>Key Laboratory of Bio-Resource and Eco-Environment of Ministry of Education, College of Life Sciences, Sichuan University, Chengdu 610065, China.</Affiliation>
</AffiliationInfo>
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<Author ValidYN="Y"><LastName>Zhang</LastName>
<ForeName>Lei</ForeName>
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</AffiliationInfo>
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</AffiliationInfo>
</Author>
<Author ValidYN="Y"><LastName>Lu</LastName>
<ForeName>Zhi-Qiang</ForeName>
<Initials>ZQ</Initials>
<AffiliationInfo><Affiliation>CAS Key Laboratory of Tropical Forest Ecology, Xishuangbanna Tropical Botanical Garden, Chinese Academy of Sciences, Mengla 666303, China.</Affiliation>
</AffiliationInfo>
</Author>
<Author ValidYN="Y"><LastName>Zhu</LastName>
<ForeName>Ren-Bin</ForeName>
<Initials>RB</Initials>
<AffiliationInfo><Affiliation>CAS Key Laboratory of Tropical Forest Ecology, Xishuangbanna Tropical Botanical Garden, Chinese Academy of Sciences, Mengla 666303, China.</Affiliation>
</AffiliationInfo>
</Author>
<Author ValidYN="Y"><LastName>Mao</LastName>
<ForeName>Xing-Xing</ForeName>
<Initials>XX</Initials>
<AffiliationInfo><Affiliation>Key Laboratory of Bio-Resource and Eco-Environment of Ministry of Education, College of Life Sciences, Sichuan University, Chengdu 610065, China.</Affiliation>
</AffiliationInfo>
</Author>
<Author ValidYN="Y"><LastName>Xi</LastName>
<ForeName>Zhen-Xiang</ForeName>
<Initials>ZX</Initials>
<AffiliationInfo><Affiliation>Key Laboratory of Bio-Resource and Eco-Environment of Ministry of Education, College of Life Sciences, Sichuan University, Chengdu 610065, China.</Affiliation>
</AffiliationInfo>
</Author>
<Author ValidYN="Y"><LastName>Tao</LastName>
<ForeName>Ma</ForeName>
<Initials>M</Initials>
<AffiliationInfo><Affiliation>Key Laboratory of Bio-Resource and Eco-Environment of Ministry of Education, College of Life Sciences, Sichuan University, Chengdu 610065, China. matao.yz@gmail.com.</Affiliation>
</AffiliationInfo>
</Author>
</AuthorList>
<Language>eng</Language>
<GrantList CompleteYN="Y"><Grant><GrantID>41871044, 31561123001, 31500502</GrantID>
<Agency>National Natural Science Foundation of China</Agency>
<Country></Country>
</Grant>
<Grant><GrantID>2016YFD0600101</GrantID>
<Agency>National Key Research and Development Program of China</Agency>
<Country></Country>
</Grant>
<Grant><GrantID>2012CB114504</GrantID>
<Agency>National Key Project for Basic Research</Agency>
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Intergeneric Relationships within the Family Salicaceae s.l. based on Plastid Phylogenomics.

Intergeneric Relationships within the Family Salicaceae s.l. based on Plastid Phylogenomics.

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