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The complete chloroplast genome sequence of Populus trinervis, and a comparative analysis with other Populus species.

ABSTRACT: Populus trinervis, which is a unique plant for China. The complete chloroplast genome sequence of Populus trinervis was characterized from Illumina pair-end sequencing. The chloroplast genome of P. trinervis was 156,415 bp in length, containing a large single-copy region (LSC) of 84,805 bp, a small single-copy region (SSC) of 16,505 bp, and two inverted repeat (IR) regions of 27,554 bp. The overall GC content is 36.70%, while the corresponding values of the LSC, SSC, and IR regions are 34.5, 30.5, and 42.0%, respectively. The genome contains 131 complete genes, including 86 protein-coding genes (62 protein-coding gene species), 37 tRNA genes (29 tRNA species), and 8 rRNA genes (4 rRNA species). The Neighbour-joining phylogenetic analysis showed that P. trinervis and P. hopeiensis clustered together as sisters to other Populus species.

SUBMITTER: Liu X

PROVIDER: S-EPMC7782331 | biostudies-literature |

REPOSITORIES: biostudies-literature

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The complete chloroplast genome sequence of Populus rotundifolia, and a comparative analysis with other Populus species.

Project description:Populus rotundifolia, which is an endemic of the Himilayas and adjacent regions, is the species that occupy the highest habitat in the Populus genus. The complete chloroplast genome sequence of Populus rotundifolia was characterized from Illumina pair-end sequencing. The chloroplast genome of P. rotundifolia was 155,212 bp in length, containing a large single-copy region (LSC) of 84,545 bp, a small single-copy region (SSC) of 16,859 bp, and two inverted repeat (IR) regions of 26,904 bp. The overall GC content is 36.80%, while the correponding values of the LSC, SSC, and IR regions are 34.5%, 30.5%, and 42.3%, respectively. The genome contains 131 complete genes, including 86 protein-coding genes (62 protein-coding gene species), 37 tRNA genes (29 tRNA species) and 8 rRNA genes (4 rRNA species). The Neighbour-joining phylogenetic analysis showed that P. rotundifolia and Populus davidiana clustered together as sisters to other Populus species.

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The complete chloroplast genome sequence of Populus davidiana, and a comparative analysis with other Populus species.

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The complete chloroplast genome sequence of Populus wilsonii based on landscape design, and a comparative analysis with other Populus species.

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Complete chloroplast genome sequence and phylogenetic analysis of Populus deltoides Caihong.

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Comparative analysis of the complete chloroplast genomes of seven Populus species: Insights into alternative female parents of Populus tomentosa.

Project description:Populus tomentosa, of section Populus, is distributed mainly in northern China. This species has high resistance to many diseases and insects, and it plays key roles in shelterbelts and urban afforestation in northern China. It has long been suspected to be a hybrid, but its parents remain unknown. In the present study, we report four newly sequenced complete cp genomes from section Populus and comparative genomic analyses of these new sequences and three published cp genome sequences. The seven cp genomes ranged from 155,853 bp (P. tremula var. davidiana) to 156,746 bp (P. adenopoda) in length, and their gene orders, gene numbers and GC contents were similar. We analyzed SNPs, indels, SSRs and repeats among the seven cp genomes, and eight small inversions were detected in the ndhC-trnV, rbcL-accD, petA-psbJ, trnW-trnP, rpl16-rps3, trnL-ycf15, ycf15-trnL, and ndhF-trnL intergenic regions. Furthermore, seven divergent regions (trnH-psbA, matK, psbM-psbD, ndhC-trnV, ycf1, ndhF-ccsA and ccsA-ndhD) were found in more highly variable regions. The phylogenetic tree reveals that P. tomentosa is closely related to P. alba and P. alba var. pyramidalis. Hence, P. alba was involved in the formation of P. tomentosa.

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The complete chloroplast genome sequence of Populus wilsonii and its phylogenetic analysis.

Project description:The complete chloroplast genome of Populus wilsonii was reconstructed by reference-based assembly using whole-genome sequencing data. The total chloroplast genome size of P. wilsonii was 158,080?bp in length, including a pair of inverted repeat regions (IRs) of 27,749?bp each, a large single-copy region (LSC) of 85,949?bp and a small single-copy region (SSC) of 16,633?bp. A total of 133 genes were predicted from the chloroplast genome, including 86 protein-coding genes, 39 tRNA genes and eight rRNA genes. Among these genes, 20 genes occurred in IRs, containing nine protein-coding genes, seven tRNA genes and four rRNA genes. The GC content of P. wilsonii chloroplast genome was 36.6%. The phylogenetic analysis with 15 other species showed that P. wilsonii was closely clustered with Populus cathayana. The complete chloroplast genome of P. wilsonii provides new insights into Populus evolutionary and genomic studies.

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The complete chloroplast genome sequence of Populus tremuloides (Salicaceae).

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The complete chloroplast genome sequence of Populus davidiana (Salicaceae).

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| S-EPMC7510576 | biostudies-literature

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