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Genomic selection and genetic architecture of agronomic traits during modern rapeseed breeding

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TLDR
A comprehensive genomic assessment of rapeseed in the breeding process based on the whole-genome resequencing of 418 diverse rapeseed accessions unraveled the genomic basis for the selection of adaptation and agronomic traits.
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This article is published in Nature Genetics.The article was published on 2022-04-28. It has received 33 citations till now. The article focuses on the topics: Medicine & Biology.

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De novo design of future rapeseed crops: Challenges and opportunities

TL;DR: In this article , advances in research on the physiological and genetic bases of both stress factors-affected yield stability and seed yield potential, focusing on source-sink relationships and allocation of photosynthetic assimilates to vegetative growth and seed development.
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Conservation and Divergence of the Trihelix Genes in Brassica and Expression Profiles of BnaTH Genes in Brassica napus under Abiotic Stresses

TL;DR: In this paper , the authors identified a total of 455 TH genes in seven species, including six Brassica species and Arabidopsis, which were grouped into five clades, GT-1, GTγ, SH4, and SIP1, each with 69, 142, 44, 55, and 145 members, respectively.
Journal ArticleDOI

Integration of multi-omics technologies for crop improvement: Status and prospects

TL;DR: The current status and future perspectives toward omics-related technologies and bioinformatic resources with potential applications in crop breeding are addressed, and potential challenges that integrate the multi-omics data with studies of gene function and their network to efficiently select desirable agronomic traits are discussed.
Journal ArticleDOI

BnIR: A multi-omics database with various tools for Brassica napus research and breeding

- 01 Apr 2023 - 
TL;DR: The rapeseed multi-omics database (BnIR) as mentioned in this paper is the most comprehensive database for rapeseed, which includes six omics including genomics, transcriptomics, variomics, epigenetics, phenomics, and metabolomics, as well as numerous "variation-gene expression-phenotype" associations.
Journal ArticleDOI

Transcriptomic analysis of rapeseed (Brassica napus. L.) seed development in Xiangride, Qinghai Plateau, reveals how its special eco-environment results in high yield in high-altitude areas

TL;DR: Zhang et al. as discussed by the authors conducted field yield analysis and transcriptome analysis in the Xiangride area of the Qinghai Plateau and found that the relatively longer daylight length is the key to high rapeseed yield.
References
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Clustal w: improving the sensitivity of progressive multiple sequence alignment through sequence weighting, position-specific gap penalties and weight matrix choice

TL;DR: The sensitivity of the commonly used progressive multiple sequence alignment method has been greatly improved and modifications are incorporated into a new program, CLUSTAL W, which is freely available.
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The Sequence Alignment/Map format and SAMtools

TL;DR: SAMtools as discussed by the authors implements various utilities for post-processing alignments in the SAM format, such as indexing, variant caller and alignment viewer, and thus provides universal tools for processing read alignments.
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Fast and accurate short read alignment with Burrows–Wheeler transform

TL;DR: Burrows-Wheeler Alignment tool (BWA) is implemented, a new read alignment package that is based on backward search with Burrows–Wheeler Transform (BWT), to efficiently align short sequencing reads against a large reference sequence such as the human genome, allowing mismatches and gaps.
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MEGA6: Molecular Evolutionary Genetics Analysis Version 6.0

TL;DR: An advanced version of the Molecular Evolutionary Genetics Analysis software, which currently contains facilities for building sequence alignments, inferring phylogenetic histories, and conducting molecular evolutionary analysis, is released, which enables the inference of timetrees, as it implements the RelTime method for estimating divergence times for all branching points in a phylogeny.
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Cytoscape: A Software Environment for Integrated Models of Biomolecular Interaction Networks

TL;DR: Several case studies of Cytoscape plug-ins are surveyed, including a search for interaction pathways correlating with changes in gene expression, a study of protein complexes involved in cellular recovery to DNA damage, inference of a combined physical/functional interaction network for Halobacterium, and an interface to detailed stochastic/kinetic gene regulatory models.
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