Uncategorized – LGRPV2

Journal of Big Data in Agriculture | Genome-wide identification and expression analysis of WRKY gene family in five legume species

whaoe5 months ago035 mins

Abstracts: In order to enhance the understanding of the diversity and evolutionary aspects of WRKY genes in legumes, we explored the functions and applications of WRKY transcription factor family members in breeding. In this study, the WRKY genes of five legumes, soybean, chickpea, kidney bean, thistles alfalfa and bermudagrass, were analyzed in terms of chromosomal…

New advances in legume phylogenetic genomics and the evolution of nitrogen fixation symbiosis in rhizobia

whaoe5 months ago014 mins

The Leguminosae (Fabaceae) are one of the largest families of flowering plants, after Asteraceae and Orchidaceae. It is one of the most successful groups of angiosperms in terms of morphological diversity and adaptability. The Fabaceae family consists of nearly 20,000 species in about 765 genera and contributes 27% of global crop production. It contains a…

World’s first! Chromosome-level genome assembly completed for leguminous green manure crop

whaoe5 months ago06 mins

Astragalus sinicus (2n=2x=16), native to China and widely grown in South Asian countries such as Korea and Japan, belongs to the leguminous family of crops of the yellow sage family. Astragalus sinicus is an important green manure crop. Crop rotation during the winter fallow period can improve soil fertility by replacing 40% of mineral nitrogen…

Research Progress丨The first genome assembly at the chromosome level of a leguminous green manure crop was completed

whaoe5 months ago04 mins

Recently, the Fertilizer and Fertilization Technology Team of the Institute of Agricultural Resources and Agricultural Planning, Chinese Academy of Agricultural Sciences (CAAS) completed the first reference genome assembly at the chromosome level of the leguminous green manure, Zi Yunying, and resolved the genetic basis of symbiotic nodulation in Zi Yunying using comparative genomics. This study…

Plant Com | Fudan University’s Qi Ji team completes near-complete genome assembly of Chinese Bauhinia

whaoe5 months ago04 mins

The Leguminosae is one of the most biodiverse families of angiosperms, with nearly 20,000 species, including many agriculturally and economically important crops. Leguminosae can be divided into six subfamilies, among which Bauhinia subfamily (Cercidoideae) has 12 genera and more than 300 species, and Glycyrrhizae subfamily (Detarioideae) has 84 genera and more than 700 species, which…

How to perform covariance analysis with WGDI (top)

WuZhixiang5 months ago024 mins

Polyploidy and subsequent gene loss and diploidization are present in most species and are important drivers of species evolution. If a species has undergone polyploidization during evolution, then there will be some covariant regions (i.e., the genes between two regions are paralogous homologous genes, and the order of their genes is basically the same) on…

Pfam Installation and Use

WuZhixiang5 months ago02 mins

I: Download and install The latest version of the Pfam database no longer has Pfam-B, so you can download Pfam-A.hmm, Pfam-A.hmm.dat and active_site.dat directly, and then unzip the downloaded files: gunzip Pfam-A.hmm.gz Pfam-A.hmm.dat.gz active_site .dat.gz II: Formatting the Pfam database via hmmerspress III: Running the program IV: Format of results The results of pfamscan protein…

JBrowse Instructions: How to Install JBrowse

WuZhixiang5 months ago5 months ago08 mins

If you want to use JBrowse, you must have administrator rights, otherwise IGV is recommended. Pre-requirements Your server must have libpng,zlib,libgd,make,C compiler, C++ compiler installed. There are different installation methods for different operating systems. If you have administrator privileges, you can just use the system’s own management tools. Note: If you don’t have administrator privileges,…

RepeatMasker Installation and Use – Genomic Repeat Sequence Annotation

WuZhixiang5 months ago5 months ago012 mins

RepeatMasker is a specialized software for genome repetitive sequence identification annotation, and classification statistics for almost all species. It is essential software for studying genomes, non-coding RNAs, transposons and mitotic collaterals and other related fields. Many small RNAs, lncRNAs are closely related to Repeat regions. Software Installation and Configuration The installation environment for Ubuntu 16.04.2…

Analyzing gene sequences with HMMER

WuZhixiang5 months ago5 months ago010 mins

HMMER is a bioinformatics software used to analyze gene sequences to quickly determine the degree of similarity between two sets of sequences, and the latest version is 3.1. However, the official website of HMMER only provides the Linux version, and the Windows version is inactive. Maybe the sequence analysis software can only work well on…