scholarly journals A genetic linkage map for the ectomycorrhizal fungusLaccaria bicolorand its alignment to the whole-genome sequence assemblies

2008 ◽  
Vol 180 (2) ◽  
pp. 316-328 ◽  
Author(s):  
J. Labbé ◽  
X. Zhang ◽  
T. Yin ◽  
J. Schmutz ◽  
J. Grimwood ◽  
...  
Keyword(s):  
Linkage Map ◽  
Genome Sequence ◽  
Genetic Linkage ◽  
Genetic Linkage Map ◽  
Whole Genome Sequence ◽  
Whole Genome

scholarly journals High-Density Genetic Linkage Map Construction Using Whole-Genome Resequencing for Mapping Qtls of Resistance to Aspergillus Flavus Infection in Peanut

2021 ◽  
Author(s):  
Yifei Jiang ◽  
Huaiyong Luo ◽  
Bolun Yu ◽  
Yingbin Ding ◽  
Yanping Kang ◽  
...  
Keyword(s):  
Linkage Map ◽  
Aspergillus Flavus ◽  
Genetic Linkage ◽  
Genetic Basis ◽  
Genetic Linkage Map ◽  
Aflatoxin Contamination ◽  
Whole Genome ◽  
Genome Resequencing ◽  
Favorable Alleles ◽  
Whole Genome Resequencing

Abstract Cultivated peanut (Arachis hypogaea L.) is rich in edible oil and protein, which is widely planted around the world as an oil and cash crop. However, aflatoxin contamination seriously affects the quality safety of peanut, hindering the development of peanut industry and threatening consumers’ health. Breeding peanut varieties with resistance to Aspergillus flavus infection is important for control the aflatoxin contamination, and understanding of the genetic basis of resistance is vital to its genetic enhancement. In this study, we report the QTL mapping of resistance to A. flavus infection of a well-known resistant variety J11. A recombination inbred line (RIL) population was constructed by crossing a susceptible variety Zhonghua 16 and J11. Through whole-genome resequencing, a genetic linkage map was constructed with 2,802 recombination bins and an average inter-bin distance of 0.58 cM. Combined with phenotypic data of infection index in four consecutive years, six novel resistant QTLs were identified and they explained 5.03-10.87% phenotypic variances. The favorable alleles of five QTLs were from J11 while that of one QTL were from Zhonghua 16. The pyramiding of these favorable alleles significantly improved the resistance to A. flavus infection. These results could contribute greatly to understanding of genetic basis of A. flavus resistance and could be meaningful in further resistance improvement in peanut.

scholarly journals Draft Genome Sequence, and a Sequence-Defined Genetic Linkage Map of the Legume Crop Species Lupinus angustifolius L

PLoS ONE ◽  
2013 ◽  
Vol 8 (5) ◽  
pp. e64799 ◽  
Author(s):  
Huaan Yang ◽  
Ye Tao ◽  
Zequn Zheng ◽  
Qisen Zhang ◽  
Gaofeng Zhou ◽  
...  
Keyword(s):  
Linkage Map ◽  
Genome Sequence ◽  
Genetic Linkage ◽  
Genetic Linkage Map ◽  
Draft Genome ◽  
Lupinus Angustifolius ◽  
Draft Genome Sequence ◽  
Crop Species ◽  
Legume Crop

scholarly journals High-Density Genetic Linkage Map Construction Using Whole-Genome Resequencing for Mapping QTLs of Resistance to Aspergillus flavus Infection in Peanut

2021 ◽  
Vol 12 ◽  
Author(s):  
Yifei Jiang ◽  
Huaiyong Luo ◽  
Bolun Yu ◽  
Yingbin Ding ◽  
Yanping Kang ◽  
...  
Keyword(s):  
Linkage Map ◽  
Aspergillus Flavus ◽  
Genetic Linkage ◽  
Genetic Basis ◽  
Genetic Linkage Map ◽  
Aflatoxin Contamination ◽  
Whole Genome ◽  
Genome Resequencing ◽  
Favorable Alleles ◽  
Whole Genome Resequencing

The cultivated peanut (Arachis hypogaea L.), which is rich in edible oil and protein, is widely planted around the world as an oil and cash crop. However, aflatoxin contamination seriously affects the quality safety of peanuts, hindering the development of the peanut industry and threatening the health of consumers. Breeding peanut varieties with resistance to Aspergillus flavus infection is important for the control of aflatoxin contamination, and understanding the genetic basis of resistance is vital to its genetic enhancement. In this study, we reported the quantitative trait locus (QTL) mapping of resistance to A. flavus infection of a well-known resistant variety, J11. A mapping population consisting of 200 recombinant inbred lines (RILs) was constructed by crossing a susceptible variety, Zhonghua 16, with J11. Through whole-genome resequencing, a genetic linkage map was constructed with 2,802 recombination bins and an average inter-bin distance of 0.58 cM. Combined with phenotypic data of an infection index in 4 consecutive years, six novel resistant QTLs with 5.03–10.87% phenotypic variances explained (PVE) were identified on chromosomes A05, A08, B01, B03, and B10. The favorable alleles of five QTLs were from J11, while that of one QTL was from Zhonghua 16. The combination of these favorable alleles significantly improved resistance to A. flavus infection. These results could contribute greatly to the understanding of the genetic basis of A. flavus resistance and could be meaningful in the improvement of further resistance in peanuts.

scholarly journals SNP Assay Development for Linkage Map Construction, Anchoring Whole-Genome Sequence, and Other Genetic and Genomic Applications in Common Bean

2015 ◽  
Vol 5 (11) ◽  
pp. 2285-2290 ◽  
Author(s):  
Qijian Song ◽  
Gaofeng Jia ◽  
David L. Hyten ◽  
Jerry Jenkins ◽  
Eun-Young Hwang ◽  
...  
Keyword(s):  
Common Bean ◽  
Linkage Map ◽  
Genome Sequence ◽  
Assay Development ◽  
Whole Genome Sequence ◽  
Whole Genome ◽  
Map Construction

scholarly journals Analysis of the Genome Sequence of Strain GiC-126 of Gloeostereum incarnatum with Genetic Linkage Map

Mycobiology ◽  
2021 ◽  
pp. 1-15
Author(s):  
Wan-Zhu Jiang ◽  
Fang-Jie Yao ◽  
Ming Fang ◽  
Li-Xin Lu ◽  
You-Min Zhang ◽  
...  
Keyword(s):  
Linkage Map ◽  
Genome Sequence ◽  
Genetic Linkage ◽  
Genetic Linkage Map

A genetic linkage map of an apple rootstock progeny anchored to the Malus genome sequence

2012 ◽  
Vol 8 (5) ◽  
pp. 991-1002 ◽  
Author(s):  
F. Fernández-Fernández ◽  
L. Antanaviciute ◽  
M. M. van Dyk ◽  
K. R. Tobutt ◽  
K. M. Evans ◽  
...  
Keyword(s):  
Linkage Map ◽  
Genome Sequence ◽  
Genetic Linkage ◽  
Genetic Linkage Map ◽  
Apple Rootstock

scholarly journals Genome Sequence Analysis of Auricularia heimuer Combined with Genetic Linkage Map

2020 ◽  
Vol 6 (1) ◽  
pp. 37
Author(s):  
Ming Fang ◽  
Xiaoe Wang ◽  
Ying Chen ◽  
Peng Wang ◽  
Lixin Lu ◽  
...  
Keyword(s):  
Sequence Analysis ◽  
Linkage Map ◽  
Genome Sequence ◽  
Mating Type ◽  
Genetic Linkage ◽  
Genetic Linkage Map ◽  
Genetic Linkage Analysis ◽  
Type Locus ◽  
Genome Sequence Analysis ◽  
Mating Type Locus

Auricularia heimuer is one of the most popular edible fungi in China. In this study, the whole genome of A. heimuer was sequenced on the Illumina HiSeq X system and compared with other mushrooms genomes. As a wood-rotting fungus, a total of 509 carbohydrate-active enzymes (CAZymes) were annotated in order to explore its potential capabilities on wood degradation. The glycoside hydrolases (GH) family genes in the A. heimuer genome were more abundant than the genes in the other 11 mushrooms genomes. The A. heimuer genome contained 102 genes encoding class III, IV, and V ethanol dehydrogenases. Evolutionary analysis based on 562 orthologous single-copy genes from 15 mushrooms showed that Auricularia formed an early independent branch of Agaricomycetes. The mating-type locus of A. heimuer was located on linkage group 8 by genetic linkage analysis. By combining the genome sequence analysis with the genetic linkage map, the mating-type locus of A. heimuer was located on scaffold45 and consisted of two subunits, α and β. Each subunit consisted of a pair of homeodomain mating-type protein genes HD1 and HD2. The mapping revealed conserved synteny at the whole mating-type loci and mirror symmetry relations near the β subunit between A. heimuer and Exidia glandulosa. This study proposed the potential for the bioethanol production by consolidated bioprocessing of A. heimuer. It will promote understanding of the lignocellulose degradation system and facilitate more efficient conversion of the agricultural wastes used for mushroom cultivation. It also will advance the research on the fruiting body development and evolution of A. heimuer.

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