PoplarV1, Main, Exploration, bibRecord, 000C66

Study of spontaneous mutations in the transmission of poplar chloroplast genomes from mother to offspring.

Identifieur interne : 000C66 ( Main/Exploration ); précédent : 000C65; suivant : 000C67

Study of spontaneous mutations in the transmission of poplar chloroplast genomes from mother to offspring.

Auteurs : Sheng Zhu [République populaire de Chine] ; Meng Xu [République populaire de Chine] ; Haoran Wang [République populaire de Chine] ; Huixin Pan [République populaire de Chine] ; Guangping Wang [République populaire de Chine] ; Minren Huang [République populaire de Chine]

Source :

BMC genomics [ 1471-2164 ] ; 2018.

RBID : pubmed:29843600

Descripteurs français

KwdFr :
- ADN des chloroplastes (génétique), Génome de chloroplaste (génétique), Génotype (MeSH), Mutation (MeSH), Polymorphisme de nucléotide simple (MeSH), Populus (génétique), Taille du génome (MeSH).
MESH :
- génétique : ADN des chloroplastes, Génome de chloroplaste, Populus.
- Génotype, Mutation, Polymorphisme de nucléotide simple, Taille du génome.

English descriptors

KwdEn :
- DNA, Chloroplast (genetics), Genome Size (MeSH), Genome, Chloroplast (genetics), Genotype (MeSH), Mutation (MeSH), Polymorphism, Single Nucleotide (MeSH), Populus (genetics).
MESH :
- chemical , genetics : DNA, Chloroplast.
- genetics : Genome, Chloroplast, Populus.
- Genome Size, Genotype, Mutation, Polymorphism, Single Nucleotide.

Abstract

BACKGROUND

Chloroplasts have their own genomes, independent from nuclear genomes, that play vital roles in growth, which is a major targeted trait for genetic improvement in Populus. Angiosperm chloroplast genomes are maternally inherited, but the chloroplast' variation pattern of poplar at the single-base level during the transmission from mother to offspring remains unknown.

RESULTS

Here, we constructed high-quality and almost complete chloroplast genomes for three poplar clones, 'NL895' and its parents, 'I69' and 'I45', from the short-read datasets using multi-pass sequencing (15-16 times per clone) and ultra-high coverage (at least 8500× per clone), with the four-step strategy of Simulation-Assembly-Merging-Correction. Each of the three resulting chloroplast assemblies contained contigs covering > 99% of Populus trichocarpa chloroplast DNA as a reference. A total of 401 variant loci were identified by a hybrid strategy of genome comparison-based and mapping-based single nucleotide polymorphism calling. The genotypes of 94 variant loci were different among the three poplar clones. However, only 1 of the 94 loci was a missense mutation, which was located in the exon region of rpoC1 encoding the β' subunit of plastid-encoded RNA polymerase. The genotype of the loci in NL895 and its female parent (I69) was different from that of its male parent (I45).

CONCLUSIONS

This research provides resources for further chloroplast genomic studies of a F

DOI: 10.1186/s12864-018-4813-8
PubMed: 29843600
PubMed Central: PMC5975492

Affiliations:

République populaire de Chine

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

to stream Main, to step Corpus: 000E09
to stream Main, to step Curation: 000E09

Le document en format XML

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<term>Genotype (MeSH)</term>
<term>Mutation (MeSH)</term>
<term>Polymorphism, Single Nucleotide (MeSH)</term>
<term>Populus (genetics)</term>
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<keywords scheme="KwdFr" xml:lang="fr"><term>ADN des chloroplastes (génétique)</term>
<term>Génome de chloroplaste (génétique)</term>
<term>Génotype (MeSH)</term>
<term>Mutation (MeSH)</term>
<term>Polymorphisme de nucléotide simple (MeSH)</term>
<term>Populus (génétique)</term>
<term>Taille du génome (MeSH)</term>
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<term>Populus</term>
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<front><div type="abstract" xml:lang="en"><p><b>BACKGROUND</b>
</p>
<p>Chloroplasts have their own genomes, independent from nuclear genomes, that play vital roles in growth, which is a major targeted trait for genetic improvement in Populus. Angiosperm chloroplast genomes are maternally inherited, but the chloroplast' variation pattern of poplar at the single-base level during the transmission from mother to offspring remains unknown.</p>
</div>
<div type="abstract" xml:lang="en"><p><b>RESULTS</b>
</p>
<p>Here, we constructed high-quality and almost complete chloroplast genomes for three poplar clones, 'NL895' and its parents, 'I69' and 'I45', from the short-read datasets using multi-pass sequencing (15-16 times per clone) and ultra-high coverage (at least 8500× per clone), with the four-step strategy of Simulation-Assembly-Merging-Correction. Each of the three resulting chloroplast assemblies contained contigs covering > 99% of Populus trichocarpa chloroplast DNA as a reference. A total of 401 variant loci were identified by a hybrid strategy of genome comparison-based and mapping-based single nucleotide polymorphism calling. The genotypes of 94 variant loci were different among the three poplar clones. However, only 1 of the 94 loci was a missense mutation, which was located in the exon region of rpoC1 encoding the β' subunit of plastid-encoded RNA polymerase. The genotype of the loci in NL895 and its female parent (I69) was different from that of its male parent (I45).</p>
</div>
<div type="abstract" xml:lang="en"><p><b>CONCLUSIONS</b>
</p>
<p>This research provides resources for further chloroplast genomic studies of a F</p>
</div>
</front>
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<Abstract><AbstractText Label="BACKGROUND" NlmCategory="BACKGROUND">Chloroplasts have their own genomes, independent from nuclear genomes, that play vital roles in growth, which is a major targeted trait for genetic improvement in Populus. Angiosperm chloroplast genomes are maternally inherited, but the chloroplast' variation pattern of poplar at the single-base level during the transmission from mother to offspring remains unknown.</AbstractText>
<AbstractText Label="RESULTS" NlmCategory="RESULTS">Here, we constructed high-quality and almost complete chloroplast genomes for three poplar clones, 'NL895' and its parents, 'I69' and 'I45', from the short-read datasets using multi-pass sequencing (15-16 times per clone) and ultra-high coverage (at least 8500× per clone), with the four-step strategy of Simulation-Assembly-Merging-Correction. Each of the three resulting chloroplast assemblies contained contigs covering > 99% of Populus trichocarpa chloroplast DNA as a reference. A total of 401 variant loci were identified by a hybrid strategy of genome comparison-based and mapping-based single nucleotide polymorphism calling. The genotypes of 94 variant loci were different among the three poplar clones. However, only 1 of the 94 loci was a missense mutation, which was located in the exon region of rpoC1 encoding the β' subunit of plastid-encoded RNA polymerase. The genotype of the loci in NL895 and its female parent (I69) was different from that of its male parent (I45).</AbstractText>
<AbstractText Label="CONCLUSIONS" NlmCategory="CONCLUSIONS">This research provides resources for further chloroplast genomic studies of a F<sub>1</sub>
 full-sibling family derived from a cross between I69 and I45, and will improve the application of chloroplast genomic information in modern Populus breeding programs.</AbstractText>
</Abstract>
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<affiliations><list><country><li>République populaire de Chine</li>
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<name sortKey="Pan, Huixin" sort="Pan, Huixin" uniqKey="Pan H" first="Huixin" last="Pan">Huixin Pan</name>
<name sortKey="Wang, Guangping" sort="Wang, Guangping" uniqKey="Wang G" first="Guangping" last="Wang">Guangping Wang</name>
<name sortKey="Wang, Haoran" sort="Wang, Haoran" uniqKey="Wang H" first="Haoran" last="Wang">Haoran Wang</name>
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Study of spontaneous mutations in the transmission of poplar chloroplast genomes from mother to offspring.

Study of spontaneous mutations in the transmission of poplar chloroplast genomes from mother to offspring.

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