Browse
Submit Data
Databases
API
Help

Dataset Information

0 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

Complete chloroplast genome of Ulva compressa (Ulvales: Ulvaceae).

ABSTRACT: Ulva compressa is one of the causal green macroalgae in many countries. In this study, complete chloroplast genome sequence of U. compressa was reported, and the total length of this species was 94,226 bp (GenBank accession number MT916929). The overall base composition of chloroplast genome was A (37.2%), T (37.0%), C (12.7%) and G (13.1%), and the percentage of A + T (74.2%) was higher than C + G (25.8%). U. compressa chloroplast genome encoded 90 genes, including 63 protein-coding genes, 23 transfer RNAs genes, and 4 ribosomal RNAs genes. The maximum likelihood phylogenetic analysis showed that U. compressa is the closest sister species of U. linza. This study will be helpful to understand the genetic diversity of Ulva species.

SUBMITTER: Xia L

PROVIDER: S-EPMC7954497 | biostudies-literature | 2021 Mar

REPOSITORIES: biostudies-literature

ACCESS DATA

Json Xml

Publications

Complete chloroplast genome of Ulva compressa (Ulvales: Ulvaceae).

Xia Lihua L Qin Yutao Y Liu Jinlin J Zhang Haofei H Wu Lingjuan L Gao Song S Zhuang Minmin M Xia Jing J Zhao Shuang S Xu Yang Y Fu Meilin M Sun Yuqing Y Tong Yichao Y Zhang Jianheng J He Peimin P

Mitochondrial DNA. Part B, Resources 20210311 3

Ulva compressa is one of the causal green macroalgae in many countries. In this study, complete chloroplast genome sequence of U. compressa was reported, and the total length of this species was 94,226 bp (GenBank accession number MT916929). The overall base composition of chloroplast genome was A (37.2%), T (37.0%), C (12.7%) and G (13.1%), and the percentage of A + T (74.2%) was higher than C + G (25.8%). U. compressa chloroplast genome encoded 90 genes, including 63 prote ...[more]

PMID: 33763560

Similar Datasets

The complete chloroplast genome sequence of Michelia compressa.

Project description:Michelia compressa is an evergreen ornamental tree species. The high-throughput sequencing technology was used to sequence and assemble the chloroplast genome of Michelia compressa. Results showed that the chloroplast genome is 160,061 bp in length, of which the inverted repeats sequence (IRs) is 26,581 bp, the large single-copy region (LSC) and the small single copy region (SSC) are 88,097 bp and 18,802 bp, respectively. The GC content of the plastome was 39.2%, with 43.2%, 37.9% and 34.2% in IRs, LSC and SSC, respectively. A total of 132 genes are annotated, 86 protein-coding genes, 37 tRNA genes, and 8 rRNA genes. This study enriched the Michelia compressa genomic information which provides the basis for rational exploitation and utilization of germplasm resources.

| S-EPMC7782975 | biostudies-literature

Ulva compressa

Project description:Ulva compressa Raw sequence reads

| PRJNA470941 | ENA

Ulva compressa

Project description:Allo-authentication revealed by sexual asymmetry and uniparental organelle-inheritance of male- and female-gametes in the green alga, Ulva compressa

| PRJDB3466 | ENA

Ulva compressa

Project description:Ulva compressa overview

| PRJNA527906 | ENA

Complete chloroplast genome of green tide algae Ulva flexuosa (Ulvophyceae, Chlorophyta) with comparative analysis.

Project description:Ulva flexuosa, one kind of green tide algae, has outbroken in the Yellow Sea of China during the past ten years. In the present study, we sequenced the chloroplast genome of U. flexuosa followed by annotation and comparative analysis. It indicated that the chloroplast genomes had high conservation among Ulva spp., and high rearrangement outside them. Though U. flexuosa was closer to U. linza than U. fasciata in phylogenetic tree, the average Ka/Ks between U. flexuosa and U. linza assessed by 67 protein-coding genes was higher than those between U. flexuosa and other species in Ulva spp., due to the variation of psbZ, psbM and ycf20. Our results laid the foundation for the future studies on the evolution of chloroplast genomes of Ulva, as well as the molecular identification of U. flexuosa varieties.

| S-EPMC5581003 | biostudies-literature

Complete chloroplast genome of an invasive marine macroalga Ulva californica (Ulvophyceae, Chlorophyta).

Project description:Species belonging to Ulva (Ulvophyceae, Chlorophyta) are one of the major members of invasive seaweeds. Ulva californica Wille 1899 was originally believed to be native to the Pacific coast of North America, while in recent years it has been reported as exotic species, or new record, in Europe, the Mediterranean, Asia, and Oceania. However, the paths of global dispersal of U. californica are unclear. In addition, the species boundary between U. californica and a related species is somewhat disputed. Here, we reported that the complete chloroplast genome of U. californica is 92,126 bp in size, harboring 96 genes (GenBank accession no. MZ561475). The overall base composition was A (37.9%), T (37.4%), C (12.3%), and G (12.4%), similar to those from other Ulva species. The phylogenomic analysis showed that although U. californica was genetically closer to Ulva aragoënsis (Bliding) Maggs 2018 in [Krupnik N et al., 2018], they were clearly distinguishable, supporting the recent opinion that they should be separated into different species. The chloroplast genome data of U. californica would provide plenty resources for phylogeography analysis and monitor on bioinvasion.

| S-EPMC9310910 | biostudies-literature

Ulva prolifera, Ulva flexuosa, Ulva linza and Ulva compressa

Project description:Ulva prolifera, Ulva flexuosa, Ulva linza and Ulva compressa Raw sequence reads

| PRJNA512140 | ENA

Keteleeria cyclolepis complete chloroplast genome

Project description:Keteleeria cyclolepis complete chloroplast genome Raw sequence reads

| PRJNA723268 | ENA

The complete chloroplast and mitochondrial genomes of the green macroalga Ulva sp. UNA00071828 (Ulvophyceae, Chlorophyta).

Project description:Sequencing mitochondrial and chloroplast genomes has become an integral part in understanding the genomic machinery and the phylogenetic histories of green algae. Previously, only three chloroplast genomes (Oltmannsiellopsis viridis, Pseudendoclonium akinetum, and Bryopsis hypnoides) and two mitochondrial genomes (O. viridis and P. akinetum) from the class Ulvophyceae have been published. Here, we present the first chloroplast and mitochondrial genomes from the ecologically and economically important marine, green algal genus Ulva. The chloroplast genome of Ulva sp. was 99,983 bp in a circular-mapping molecule that lacked inverted repeats, and thus far, was the smallest ulvophycean plastid genome. This cpDNA was a highly compact, AT-rich genome that contained a total of 102 identified genes (71 protein-coding genes, 28 tRNA genes, and three ribosomal RNA genes). Additionally, five introns were annotated in four genes: atpA (1), petB (1), psbB (2), and rrl (1). The circular-mapping mitochondrial genome of Ulva sp. was 73,493 bp and follows the expanded pattern also seen in other ulvophyceans and trebouxiophyceans. The Ulva sp. mtDNA contained 29 protein-coding genes, 25 tRNA genes, and two rRNA genes for a total of 56 identifiable genes. Ten introns were annotated in this mtDNA: cox1 (4), atp1 (1), nad3 (1), nad5 (1), and rrs (3). Double-cut-and-join (DCJ) values showed that organellar genomes across Chlorophyta are highly rearranged, in contrast to the highly conserved organellar genomes of the red algae (Rhodophyta). A phylogenomic investigation of 51 plastid protein-coding genes showed that Ulvophyceae is not monophyletic, and also placed Oltmannsiellopsis (Oltmannsiellopsidales) and Tetraselmis (Chlorodendrophyceae) closely to Ulva (Ulvales) and Pseudendoclonium (Ulothrichales).

| S-EPMC4388391 | biostudies-literature

Isolation and Characterization of Copper- and Zinc- Binding Metallothioneins from the Marine Alga Ulva compressa (Chlorophyta).

Project description:In this work, transcripts encoding three metallothioneins from Ulva compressa (UcMTs) were amplified: The 5'and 3' UTRs by RACE-PCR, and the open reading frames (ORFs) by PCR. Transcripts encoding UcMT1.1 (Crassostrea-like), UcMT2 (Mytilus-like), and UcMT3 (Dreissena-like) showed a 5'UTR of 61, 71, and 65 nucleotides and a 3'UTR of 418, 235, and 193 nucleotides, respectively. UcMT1.1 ORF encodes a protein of 81 amino acids (MW 8.2 KDa) with 25 cysteines (29.4%), arranged as three motifs CC and nine motifs CXC; UcMT2 ORF encode a protein of 90 amino acids (9.05 kDa) with 27 cysteines (30%), arranged as three motifs CC, nine motifs CXC, and one motif CXXC; UcMT3 encode a protein of 139 amino acids (13.4 kDa) with 34 cysteines (24%), arranged as seven motifs CC and seven motifs CXC. UcMT1 and UcMT2 were more similar among each other, showing 60% similarity in amino acids; UcMT3 showed only 31% similarity with UcMT1 and UcMT2. In addition, UcMTs displayed structural similarity with MTs of marine invertebrates MTs and the terrestrial invertebrate Caenorhabtidis elegans MTs, but not with MTs from red or brown macroalgae. The ORFs fused with GST were expressed in bacteria allowing copper accumulation, mainly in MT1 and MT2, and zinc, in the case of the three MTs. Thus, the three MTs allowed copper and zinc accumulation in vivo. UcMTs may play a role in copper and zinc accumulation in U. compressa.

| S-EPMC6981760 | biostudies-literature