Molecular Characterization of Parental Lines and Validation of Snp Markers for Disease Resistance in Common Bean

Abstract The implementation of molecular tools that help the early selection of genotypes carrying target alleles increases efficiency and reduces the time and costs of breeding programs. The present study aimed the molecular characterization and validation of SNPs targeting disease resistance alleles for assisted selection. A total of 376 common bean lines with contrasting responses for anthracnose and angular leaf spot resistance were used, as well as 149 F2 plants from the cross between BRS Cometa x SEL 1308 (carrying the Anthracnose resistance gene Co-42). Seven of the ten SNP markers evaluated showed potential for assisted breeding: snpPV0025 (Phg-2), snpPV0027 (Phg-5), snpPV0079 (Phg-5), snpPV0046 (Co-u), snpPV0068 (Co-42), snpPV0070 (Co-42) and snpP8282v3-817 (Co-42). Markers snpPV0070 and snpP8282v3-817 showed high efficiency of selection (99.7 and 99.8%, respectively). These markers exhibit great potential to assist in the selection at different stages of the breeding program and may be readily incorporated into marker-assisted selection.

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Genetic diversity and population structure of ridge gourd (Luffa acutangula) accessions in a Thailand collection using SNP markers

Scientific Reports ◽

10.1038/s41598-021-94802-4 ◽

2021 ◽

Vol 11 (1) ◽

Author(s):

Grimar Abdiel Perez ◽

Pumipat Tongyoo ◽

Julapark Chunwongse ◽

Hans de Jong ◽

Anucha Wongpraneekul ◽

...

Keyword(s):

Genetic Diversity ◽

Population Structure ◽

Germplasm Collection ◽

Snp Markers ◽

Fixation Index ◽

Breeding Programs ◽

Total Fixation ◽

Unrooted Phylogenetic Tree ◽

Luffa Acutangula ◽

Selection Of

AbstractThis study explored a germplasm collection consisting of 112 Luffa acutangula (ridge gourd) accessions, mainly from Thailand. A total of 2834 SNPs were used to establish population structure and underlying genetic diversity while exploring the fruit characteristics together with genetic information which would help in the selection of parental lines for a breeding program. The study found that the average polymorphism information content value of 0.288 which indicates a moderate genetic diversity for this L. acutangula germplasm. STRUCTURE analysis (ΔK at K = 6) allowed us to group the accessions into six subpopulations that corresponded well with the unrooted phylogenetic tree and principal coordinate analyses. When plotted, the STRUCTURE bars to the area of collection, we observed an admixed genotype from surrounding accessions and a geneflow confirmed by the value of FST = 0.137. AMOVA based on STRUCTURE clustering showed a low 12.83% variation between subpopulations that correspond well with the negative inbreeding coefficient value (FIS = − 0.092) and low total fixation index (FIT = 0.057). There were distinguishing fruit shapes and length characteristics in specific accessions for each subpopulation. The genetic diversity and different fruit shapes in the L. acutangula germplasm could benefit the ridge gourd breeding programs to meet the demands and needs of consumers, farmers, and vegetable exporters such as increasing the yield of fruit by the fruit width but not by the fruit length to solve the problem of fruit breakage during exportation.

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Pathogenic and molecular characterization of Pythium species inducing root rot symptoms of common bean in Rwanda

African Journal of Microbiology Research ◽

10.5897/ajmr10.747 ◽

2011 ◽

Vol 5 (10) ◽

pp. 1169-1181 ◽

Cited By ~ 11

Author(s):

Nzungize J ◽

Gepts P ◽

Buruchara R ◽

Buah S ◽

Ragama P ◽

...

Keyword(s):

Common Bean ◽

Molecular Characterization ◽

Root Rot ◽

Pythium Species

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Genomic and Molecular Characterization of Miltefosine Resistance in Leishmania infantum Strains with Either Natural or Acquired Resistance through Experimental Selection of Intracellular Amastigotes

PLoS ONE ◽

10.1371/journal.pone.0154101 ◽

2016 ◽

Vol 11 (4) ◽

pp. e0154101 ◽

Cited By ~ 46

Author(s):

Annelies Mondelaers ◽

Maria P. Sanchez-Cañete ◽

Sarah Hendrickx ◽

Eline Eberhardt ◽

Raquel Garcia-Hernandez ◽

...

Keyword(s):

Molecular Characterization ◽

Leishmania Infantum ◽

Acquired Resistance ◽

Intracellular Amastigotes ◽

Selection Of

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Molecular characterization of PVAS3: An asparagine synthetase gene from common bean prevailing in developing organs

Journal of Plant Physiology ◽

10.1016/j.jplph.2013.06.002 ◽

2013 ◽

Vol 170 (17) ◽

pp. 1484-1490 ◽

Cited By ~ 5

Author(s):

Gregorio Gálvez-Valdivieso ◽

Josefa Muñoz Alamillo ◽

Javier Fernández ◽

Manuel Pineda

Keyword(s):

Common Bean ◽

Molecular Characterization ◽

Asparagine Synthetase

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Molecular Characterization of Common Bean (Phaseolus vulgaris L.) Genotypes Using Microsatellite Markers

Journal of Advances in Biology & Biotechnology ◽

10.9734/jabb/2017/33519 ◽

2017 ◽

Vol 13 (2) ◽

pp. 1-15 ◽

Cited By ~ 2

Author(s):

Pam Gyang ◽

Evans Nyaboga ◽

Edward Muge

Keyword(s):

Phaseolus Vulgaris ◽

Microsatellite Markers ◽

Common Bean ◽

Molecular Characterization ◽

Phaseolus Vulgaris L

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Characterization of the Common japonica-Originated Genomic Regions in the High Yielding Varieties Developed from Inter-Subspecific Crosses in Rice (Oryza sativa L.)

10.20944/preprints202004.0428.v1 ◽

2020 ◽

Author(s):

Jeonghwan Seo ◽

So-Myeong Lee ◽

Jae-Hyuk Han ◽

Na-Hyun Shin ◽

Yoon Kyung Lee ◽

...

Keyword(s):

Molecular Breeding ◽

Snp Markers ◽

Yield Potential ◽

Breeding Programs ◽

Wx Gene ◽

High Yielding Varieties ◽

Indica And Japonica Subspecies ◽

Genomic Regions ◽

Further Development

The inter-subspecific crossing between indica and japonica subspecies in rice have been utilized to improve yield potential in temperate rice. In this study, a comparative study of the genomic regions in the eight high yielding varieties (HYVs) was conducted with those of the four non-HYV varieties. NGS mapping on the Nipponbare reference genome identified a total of 14 common genomic regions of japonica-originated alleles. Interestingly, the HYVs shared the japonica-originated genomic regions on the nine chromosomes, although they were developed from different breeding programs. A panel of 94 varieties was classified into four varietal groups with the 39 SNP markers from 39 genes residing the japonica-originated genomic regions and 16 additional trait-specific SNPs. As expected, the japonica originated genomic regions were present only in JAP and HYV groups with exceptions for Chr4-1 and Chr4-2. The Wx gene located within Chr6-1 was present in HYV and JAP variety groups, while the yield-related genes were conserved as indica alleles in HYVs. The japonica-originated genomic regions and alleles shared by HYVs can be employed in molecular breeding programs for further development of HYVs in rice.

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