Browse
Submit Data
Databases
API
Help

Dataset Information

17 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

Characterization of the complete chloroplast genome of Arachis pintoi Krapov. & W.C.Greg., a perennial leguminous forage.

ABSTRACT: Arachis pintoi Krapov. & W.C.Greg. is an important leguminous forage grass species that have extremely wide ranges of distribution in the tropical and sub-tropical regions. It has high feeding value and horticultural value. In this study, we sequenced and assembled the complete chloroplast genome of A. pintoi. The chloroplast genome is 156,185 bp in length, containing a pair of inverted repeated (IR) regions of 25,820 bp that are separated by a large single copy (LSC) region of 85,637 bp, and a small single copy (SSC) region of 18,908 bp. The complete chloroplast genome contains 112 unique genes, including 80 protein-coding genes, 28 transfer RNA genes (tRNAs), and four ribosomal RNA genes (rRNAs). The overall GC content was 36.4%. The phylogenetic analysis demonstrated that A. pintoi formed a single branch among genus Arachis. The whole chloroplast genome of A. pintoi will be a useful resource for future studies on phylogeny and conservation in Arachis.

SUBMITTER: Zhang XL

PROVIDER: S-EPMC8635593 | biostudies-literature |

REPOSITORIES: biostudies-literature

ACCESS DATA

Json Xml

Similar Datasets

The complete chloroplast genome of leguminous forage Onobrychis viciifolia.

Project description:Onobrychis viciifolia is mainly distributed in Europe and has been widely cultivated in North and Northwest of China. The complete chloroplast genome was sequenced using the Illumina Hiseq X-Ten platform. The genome lacks an inverted repeat (IR) region, containing 76 protein-coding genes, 30 tRNAs genes and 4 rRNAs. The overall GC content is 34.6%. A phylogenetic tree based on the whole chloroplast genomes of 14 species indicated that Onobrychis viciifolia belonged to the tribe Hydysareae in IRLC group of the subfamily Papilionoideae (Leguminosae), and it was sister to the genus Hedysarum.

| S-EPMC7971300 | biostudies-literature

The complete chloroplast genome sequence of Astragalus melilotoides (Fabaceae), a leguminous forage in Northern China.

Project description:Astragalus melilotoides Pall. 1776 is a perennial leguminous forage, widely distributed in northern China, with cold, drought and disease resistance characteristics. Here, we determined the complete chloroplast (cp) genome sequence of A. melilotoides. It was 123,827 bp in length and 36.97% GC content with IR loss. The cp genome contained 110 complete genes, including 76 protein-coding genes, 30 tRNA genes, and four rRNA genes. A maximum likelihood (ML) phylogenetic tree revealed that A. melilotoides was related to A. americanus, A. gummifer, A. mongholicus, A. nakaianus, A. mongholicus var. nakaianus, and A. membranaceus var. membranaceus. The cp genome analysis of A. melilotoides will provide a reference for the phylogenetic study of Astragalus in the future.

| S-EPMC9848237 | biostudies-literature

Complete chloroplast genome sequence of a major allogamous forage species, perennial ryegrass (Lolium perenne L.).

Project description:Lolium perenne L. (perennial ryegrass) is globally one of the most important forage and grassland crops. We sequenced the chloroplast (cp) genome of Lolium perenne cultivar Cashel. The L. perenne cp genome is 135 282 bp with a typical quadripartite structure. It contains genes for 76 unique proteins, 30 tRNAs and four rRNAs. As in other grasses, the genes accD, ycf1 and ycf2 are absent. The genome is of average size within its subfamily Pooideae and of medium size within the Poaceae. Genome size differences are mainly due to length variations in non-coding regions. However, considerable length differences of 1-27 codons in comparison of L. perenne to other Poaceae and 1-68 codons among all Poaceae were also detected. Within the cp genome of this outcrossing cultivar, 10 insertion/deletion polymorphisms and 40 single nucleotide polymorphisms were detected. Two of the polymorphisms involve tiny inversions within hairpin structures. By comparing the genome sequence with RT-PCR products of transcripts for 33 genes, 31 mRNA editing sites were identified, five of them unique to Lolium. The cp genome sequence of L. perenne is available under Accession number AM777385 at the European Molecular Biology Laboratory, National Center for Biotechnology Information and DNA DataBank of Japan.

| S-EPMC2695775 | biostudies-literature

Characterization of the complete chloroplast genome of the perennial plant Tradescantia ohiensis Raf. (Commelinales: Commelinaceae).

Project description:Tradescantia ohiensis Raf. (Ohio spiderwort/blue-jacket) is a perennial herb native to North America that has become widely established in China. The chloroplast (cp) genome of T. ohiensis was assembled using Illumina sequencing reads. It is 164,140 bp in length with an A + T-biased nucleotide composition, and comprises a large single-copy (LSC) region (91,248 bp), a small single-copy (SSC) region (18,426 bp), and a pair of inverted repeat (IR) regions (27,233 bp). The cp genome harbors a total of 112 gene species with 19 of them being completely or partially duplicated and 18 of them possessing one or two introns. Phylogenetic analysis suggests that T. ohiensis is most closely related to the congeneric T. virginiana.

| S-EPMC8635560 | biostudies-literature

The complete chloroplast genome of Triosteum himalayanum (Caprifoliaceae), a perennial alpine herb.

Project description:Triosteum himalayanum is a perennial herb which is distributed in the eastern Himalayas, Hengduan Mountains, and central China. The complete chloroplast genome of T. himalayanum is studied for the first time, which is 154,579?bp in length and is divided into four regions: two inverted repeat (IRA and IRB) regions of 23,370?bp, a small single copy (SSC) region of 18,682?bp and a large single copy (LSC) region of 89,157?bp. The plastid genome contains 133 genes, including 86 protein-coding genes, 39 tRNA genes, and 8 rRNA genes. The overall CG content in the chloroplast genome of T. himalayanum is 38.38%. The phylogenetic analysis on the complete plastome sequence of T. himalayanum will help to show the intergeneric diversity of Caprifoliaceae.

| S-EPMC7707766 | biostudies-literature

The complete chloroplast genome of Aster sampsonii (Hance) Hemsl, a perennial herb.

Project description:Aster sampsonii (Hance) Hemsl is endemic to China. The complete chloroplast genome of Aster sampsonii was studied here. The genome was 152,686 base pair (bp) in length, containing a large single-copy (LSC) region of 84,345 bp, a small single-copy region (SSC) of 18,249 bp and a pair of inverted repeats (IRs) of 25,046 bp. It contains 132 unique genes, including 86 protein-coding genes, 36 transfer RNA (tRNA) genes, and eight ribosomal RNA (rRNA) genes. The GC content of the complete chloroplast genome sequence was 37.3%. Phylogenetic analyses using complete chloroplast genomes showed that Aster sampsonii is most closely related to Aster hypoleucus (NC_046503.1).

| S-EPMC8354157 | biostudies-literature

Complete chloroplast genome sequence of Annamocarya sinensis (Juglandaceae), an endangered perennial plant.

Project description:Annamocarya sinensis (Juglandaceae) is a tertiary relict tree restricted to southeastern China and northern Vietnam. Here, we first report and characterize its complete chloroplast genome based on Illumina paired-end sequencing data. The complete plastid genome was 160,065 bp, which contained inverted repeats (IR) of 25,786 bp separated by a large single-copy (LSC) and a small single copy (SSC) of 89,759 bp and 18,734 bp, respectively. The cpDNA contains 130 genes, comprising 85 protein-coding genes, 36 tRNA genes, 8 rRNA genes, and one processed pseudogene. The overall GC content of the plastome is 36.3%. The phylogenetic analysis of 18 selected chloroplast genomes demonstrated that A. sinensis was close to the species Carya kweichowensis.

| S-EPMC7707428 | biostudies-literature

The complete chloroplast genome of Melilotus albus: an important source of forage species.

Project description:Melilotus albus belongs to the legume family. It is known as the greatest potential forage crop and native to Eurasia and North Africa. The nitrogen fixation rate of Melilotus albus is superior to other legumes, making it beneficial for crop rotations. Melilotus albus has also been a species with good forage productivity and is more and more important in the medicinal value of its high coumarin content. In this study, the complete chloroplast genome of Melilotus albus was assembled and analysed. The complete chloroplast genome of Melilotus albus was 127,205?bp in length. It harbours 108 functional genes, including 76 protein-coding genes, 28 transfer RNA, and four ribosomal RNA genes species. The overall nucleotide composition was: 33.3% A, 33.1% T, 16.3% C, and 17.3% G, with a total A?+?T rich content of 66.4%. Phylogenetic relationship analysis showed that Melilotus albus has closely related to Medicago.

| S-EPMC7800965 | biostudies-literature

Complete chloroplast genome of a high-quality forage in north China, Medicago ruthenica (Fabaceae：Trifolieae).

Project description:Medicago ruthenica is a well-known high-quality forage due to its good palatability and strong tolerance to drought, cold and saline-alkali stress. Here, the complete chloroplast genome sequence of M. ruthenica was reported. The chloroplast genome is 126,939 bp in length. This chloroplast genome has no inverted repeat (IR) regions, which is very common in the family Fabaceae. The M. ruthenica chloroplast genome encodes 107 genes, including 73 protein-coding genes, 30 tRNA genes, and 4 rRNA genes. Phylogenetic analysis result strongly suggested that M. ruthenica is a distinct lineage in Medicago, being sister to highly supported clade composed of three species (M. hybrida, M. papillosa and M. sativa).

| S-EPMC7808323 | biostudies-literature