ArticlePloS one2013
Genome survey sequencing and genetic background characterization of Gracilariopsis lemaneiformis (Rhodophyta) based on next-generation sequencing.
Article in PloS one, 2013. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 23 papers.
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23 citing papers in PubMed, 106 citations in OpenAlex.
- FirstFrontiers in plant science · 2024Article
- Whole-Genome Survey and Microsatellite Marker Detection of Antarctic Crocodile Icefish,Animals : an open access journal from MDPI · 2022Article
- Identification, Characteristics and Function of Phosphoglucomutase (PGM) in the Agar Biosynthesis and Carbon Flux in the AgarophyteMarine drugs · 2022Article
- Genome survey of Misgurnus anguillicaudatus to identify genomic information, simple sequence repeat (SSR) markers, and mitochondrial genome.Molecular biology reports · 2022Article
- Genome survey sequencing of common vetch (Vicia sativa L.) and genetic diversity analysis of Chinese germplasm with genomic SSR markers.Molecular biology reports · 2022Article
- Rapid and Synchronous Breeding of Cytoplasmic Male Sterile and Maintainer Line Through Mitochondrial DNA Rearrangement Using Doubled Haploid Inducer inFrontiers in plant science · 2022Article
- A First Genome Survey and Genomic SSR Marker Analysis ofAnimals : an open access journal from MDPI · 2021Article
- Genomic survey sequencing, development and characterization of single- and multi-locus genomic SSR markers of Elymus sibiricus L.BMC plant biology · 2021Article
- Genome survey sequencing and genetic diversity of cultivated Akebia trifoliata assessed via phenotypes and SSR markers.Molecular biology reports · 2021Article
- Genomic characteristics and profile of microsatellite primers for Acanthogobius ommaturus by genome survey sequencing.Bioscience reports · 2020Article
- Genome survey of Zanthoxylum bungeanum and development of genomic-SSR markers in congeneric species.Bioscience reports · 2020Article
- Whole genome survey analysis and microsatellite motif identification of Sebastiscus marmoratus.Bioscience reports · 2020Article
- Genome Survey of Male and Female Spotted Scat (Animals : an open access journal from MDPI · 2019Article
- A First Insight into a Draft Genome of Silver Sillago (Animals : an open access journal from MDPI · 2019Article
- Heterozygous Single Nucleotide Polymorphic Loci in Haploid Gametophytes ofFrontiers in genetics · 2019Article
- Genome survey on invasive veined rapa whelk (Journal of genetics · 2018Article
- Genomic analyses of unique carbohydrate and phytohormone metabolism in the macroalga Gracilariopsis lemaneiformis (Rhodophyta).BMC plant biology · 2018Article
- Article
- Genome Survey Sequencing of Luffa Cylindrica L. and Microsatellite High Resolution Melting (SSR-HRM) Analysis for Genetic Relationship of Luffa Genotypes.International journal of molecular sciences · 2017Article
- Genome survey of pistachio (Pistacia vera L.) by next generation sequencing: Development of novel SSR markers and genetic diversity in Pistacia species.BMC genomics · 2016Article
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Authors and funding
8 authors at 1 institution in 1 country.
Funding
No grant is acknowledged in the PubMed record.
Abstract
Gracilariopsis lemaneiformis has a high economic value and is one of the most important aquaculture species in China. Despite it is economic importance, it has remained largely unstudied at the genomic level. In this study, we conducted a genome survey of Gp. lemaneiformis using next-generation sequencing (NGS) technologies. In total, 18.70 Gb of high-quality sequence data with an estimated genome size of 97 Mb were obtained by HiSeq 2000 sequencing for Gp. lemaneiformis. These reads were assembled into 160,390 contigs with a N50 length of 3.64 kb, which were further assembled into 125,685 scaffolds with a total length of 81.17 Mb. Genome analysis predicted 3490 genes and a GC% content of 48%. The identified genes have an average transcript length of 1,429 bp, an average coding sequence size of 1,369 bp, 1.36 exons per gene, exon length of 1,008 bp, and intron length of 191 bp. From the initial assembled scaffold, transposable elements constituted 54.64% (44.35 Mb) of the genome, and 7737 simple sequence repeats (SSRs) were identified. Among these SSRs, the trinucleotide repeat type was the most abundant (up to 73.20% of total SSRs), followed by the di- (17.41%), tetra- (5.49%), hexa- (2.90%), and penta- (1.00%) nucleotide repeat type. These characteristics suggest that Gp. lemaneiformis is a model organism for genetic study. This is the first report of genome-wide characterization within this taxon.
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