Browse
Submit Data
Databases
API
Help

Dataset Information

0 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

The complete chloroplast genome of Caroxylon passerinum (Chenopodiaceae), an annual desert plant.

ABSTRACT: Caroxylon passerinum is an important constructive species, which is widely distributed in both desert and desert steppe in north-western China. C. passerinum is one of hosts of holoparasitic Cistanche species. In this study, we report the complete chloroplast genome sequence of C. passerinum, which is 150,925 bp in length and comprises a large single-copy region (83,057 bp), a small single-copy region (18,180 bp), and a pair of inverted repeats (24,844 bp). It encodes 132 unique genes, including 89 protein-coding genes (PCGs), 35 tRNAs, and eight rRNAs. The overall GC content of this chloroplast genome is 36.8%. Maximum likelihood (ML) phylogenetic tree strongly supports that C. passerinum is closely related to the hosts of Cistanche deserticola, Haloxylon persicum and Haloxylon ammodendron.

SUBMITTER: Xie W

PROVIDER: S-EPMC8890536 | biostudies-literature | 2022

REPOSITORIES: biostudies-literature

ACCESS DATA

Json Xml

Publications

The complete chloroplast genome of Caroxylon passerinum (Chenopodiaceae), an annual desert plant.

Xie Wei W Zhang Chi C Wang Yuguo Y Zhang Yunfei Y

Mitochondrial DNA. Part B, Resources 20220227 3

Caroxylon passerinum is an important constructive species, which is widely distributed in both desert and desert steppe in north-western China. C. passerinum is one of hosts of holoparasitic Cistanche species. In this study, we report the complete chloroplast genome sequence of C. passerinum, which is 150,925 bp in length and comprises a large single-copy region (83,057 bp), a small single-copy region (18,180 bp), and a pair of inverted repeats (24,844 bp). It encodes ...[more]

PMID: 35252576

Similar Datasets

The complete chloroplast genome of Pyankovia brachiata (amaranthaceae), an annual desert plant in China.

Project description:Pyankovia brachiata (Pall.) Akhani & Roalson 2007, is an annual plant belonging to the genus Pyankovia, family Amaranthaceae, which is widely distributed in the inland deserts of Northwest China. P. brachiata was previously categorized under the genus Salsola in Salsoleae and has been a long-standing topic of debate. Therefore, the complete chloroplast genome of P. brachiata must be studied to provide a theoretical reference for species classification. In this study, we sequenced P. brachiata samples and determined the species' complete chloroplast genome. The complete chloroplast genome was 149,922 bp in length, with one large single copy (LSC: 83,565 bp), one small single copy (SSC: 18,535 bp), and two inverted repeat regions (IRa and IRb, 23,911 bp each). It contains 132 genes, including 87 protein-coding, eight rRNA, and 37 tRNA genes. The phylogenetic position showed that P. brachiata has the closest relationship with Caroxylon passerinum (accession number: NC057191.1). This study will provide genetic information and be beneficial to understanding the systematic position of P. brachiata within the Amaranthaceae.

| S-EPMC11334741 | biostudies-literature

The complete chloroplast genome of Salsola abrotanoides (Chenopodiaceae), a desert halophyte shrub in China.

Project description:Salsola abrotanoides, one of the dominant plant species of desert vegetation, adapts well to the arid, saline, and alkaline environment in the Qinghai-Tibetan Plateau. Here, we reported the complete chloroplast sequence and characters of S. abrotanoides based on the Illumina NovaSeq Platform. The chloroplast genome is 151,622 bp in length, containing a pair of inverted repeated (IR) regions of 23,701 bp, a large single copy (LSC) region of 84,658 bp, and a small single copy (SSC) region of 19,562 bp. And the chloroplast genome sequence encodes 130 genes totally, including 85 mRNA genes, 37 tRNA genes, and 8 rRNA genes. S. abrotanoides is the first species of Genus Salsola and the chloroplast sequence will provide a valuable resource for the phylogenetic studies of Chenopodiaceae.

| S-EPMC7995892 | biostudies-literature

Characterization of the complete chloroplast genome of Suaeda salsa (Amaranthaceae/Chenopodiaceae), an annual succulent halophyte.

Project description:Suaeda salsa, an annual succulent halophytic herb, is one of the major halophyte widely distributed in both saline inland and the intertidal zone. In this study, we report the complete chloroplast genome (plastome) of S. salsa. The plastome was 151,642 bp in length and comprises a large single-copy region (83,502 bp), a small single-copy region (17,780 bp), and a pair of inverted repeats (25,180 bp). It encodes 113 unique genes, including 79 protein-coding genes (PCGs), 30 tRNAs, and four rRNAs. The overall GC content of this plastome was 36.4%. Phylogenomic analysis based on 20 plastomes revealed that S. salsa was closely related to S. malacosperma.

| S-EPMC7687626 | biostudies-literature

The complete chloroplast genome of Suaeda physophora Pall. (Chenopodiaceae).

Project description:Suaeda physophora Pall. (Chenopodiaceae) is a leaf succulent shrub species with potential usefulness as fodder for the desert animal. However, the phylogeny of S. physophora is lacking. Here, we sequenced and assembled a complete chloroplast genome of S. physophora and further reconstructed the phylogeny of Chenopodiaceae. The chloroplast genome of S. physophora is 151,104 bp in length, consisting of an 18,597 bp small single-copy (SSC), an 82,845 bp large single-copy (LSC), and a pair of 24,831 bp inverted repeat (IR) regions. The genome encodes 131 genes, including 87 protein-coding genes, 36 tRNA genes, and eight rRNA genes. Phylogenetic analysis revealed that the genus Suaeda forms a monophyletic taxon, and S. physophora is closely related to S. eltonica. Chloroplast genome and phylogenetic studies provided an essential foundation for the conservation of S. physophora.

| S-EPMC9448367 | biostudies-literature

Characterization of the complete chloroplast genome of Chenopodium sp. (Caryophyllales: Chenopodiaceae).

Project description:In this study, the complete chloroplast genome of Chenopodium sp. were sequenced and annotated. The complete chloroplast genome of Chenopodium sp. was composed of circular DNA molecules with a total length of 152,068 bp. The base composition of this chloroplast genome is as follows: A (31.16%), T (31.58%), G (18.27%), and C (18.99%). The chloroplast genome contains 84 protein-coding genes, 8 ribosomal RNA genes (rRNA), and 37 transfer RNA (tRNA) genes. The taxonomic status of the Chenopodium sp. chloroplast genome exhibits a closest relationship with Chenopodium quinoa.

| S-EPMC7706533 | biostudies-literature

Reference genome of the color polymorphic desert annual plant sandblossoms, Linanthus parryae.

Project description:Sandblossoms, Linanthus parryae is a widespread annual plant species found in washes and sandy open habitats across the Mojave Desert and Eastern Sierra Nevada of California. Studies in this species have played a central role in evolutionary biology, serving as the first test cases of the shifting balance theory of evolution, models of isolation by distance, and metrics to describe the genetic structure of natural populations. Despite the importance of L. parryae in the development of landscape genetics and phylogeography, there are no genomic resources available for the species. Through the California Conservation Genomics Project, we assembled the first genome in the genus Linanthus. Using PacBio HiFi long reads and Hi-C chromatin conformation capture, we assembled 123 scaffolds spanning 1.51 Gb of the 1.96 Gb estimated genome, with a contig N50 of 18.7 Mb and a scaffold N50 of 124.8 Mb. This assembly, with a BUSCO completeness score of 88.7%, will allow us to revisit foundational ideas central to our understanding of how evolutionary forces operate in a geographic landscape. In addition, it will be a new resource to uncover adaptations to arid environments in the fragile desert habitat threatened by urban and solar farm development, climate change, and off-road vehicles.

| S-EPMC9709995 | biostudies-literature

Characterization of the complete plastome of Atriplex centralasiatica (Chenopodiaceae), an annual halophytic herb.

Project description:Atriplex centralasiatica, an annual halophytic herb, is one of the most important Chinese herbal medicines, forages and indicator plants for saline-alkali soil. In this study, we report the complete plastome of A. centralasiatica. The plastome was 152,237 bp in length and comprises a large single-copy region (83,721 bp), a small single-copy region (18,096 bp), and a pair of inverted repeats (25,210 bp). It encodes 113 unique genes, including 79 protein-coding genes (PCGs), 30 tRNAs and 4 rRNAs. The overall GC content of this plastome was 37.3%. Phylogenomic analysis based on 21 plastomes revealed that A. centralasiatica was closely related to the genus Chenopodium.

| S-EPMC7687555 | biostudies-literature

The complete chloroplast genome of an annual halophyte herb, Suaeda glauca (Amaranthaceae).

Project description:The complete chloroplast genome (plastome) of Suaeda glauca, an annual halophytic herb, was determined in this study. The plastome was 149,807 bp in size, containing a large single-copy region (82,162 bp), a small single-copy region (18,191 bp), and two inverted repeats regions (24,727 bp). The overall GC content of this plastome was 36.5%. In total, 113 unique genes, including 79 protein-coding genes (PCGs), 30 tRNAs and 4 rRNAs, were annotated. Phylogenomic analysis showed that S. glauca was sister to other Suaeda species.

| S-EPMC7706549 | biostudies-literature

The complete chloroplast genome of Salix psamaphila, a desert shrub in northwest China.

Project description:Salix psammophila C. Wang & Chang Y. Yang is a desert plant species distributed in Northwest China. Here, we report the complete choroplast genome sequences in order to enrich its genetic resource. The total genome is 155,278 bp in length and contains a typical quadripartite structure, including a large single copy (LSC) region of 84,457 bp, a small single copy (SSC) region of 15,891 bp, and a pair of inverted repeats (IRs) of 27,465 bp. There were 130 genes in the genome, including 85 protein-coding genes, 37 tRNA genes and eight rRNA genes. The overall CG content in the plastome of S. psammophila is 36.72%. The phylogenetic tree based on 18 complete plastomes of Salicaceae support close relationships among S. psammophila, Salix taoensis, and Salix rehderiana.

| S-EPMC7707305 | biostudies-literature

The complete chloroplast genome sequence of Ammodendron bifolium (Fabaceae), an endangered desert shrub from China

Project description: Not available

| S-EPMC10913713 | biostudies-literature