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Assessing the genetic diversity of cowpea [Vigna unguiculata (L.) Walp.] germplasm collections using phenotypic traits and SNP markers
Isack Mathew
University of KwaZulu-Natal
Corresponding Author
ORCiD: https://orcid.org/0000-0001-7358-4690
License:
This work is licensed under a CC BY 4.0 License. Read Full License
View the published version at BMC Genomic Data.
Background: Productivity of cowpea [Vigna unguiculata (L.) Walp] in sub-Sahara Africa is curtailed by a lack of farmer-preferred and improved cultivars and modern production technologies. The objectives of the study were to determine the extent of genetic diversity present among a collection of cowpea accessions from Zambia and Malawi using phenotypic traits and single nucleotide polymorphism (SNP) markers and, to select distinct and complementary parental lines for cultivar development. One hundred cowpea genotypes were evaluated for agronomic traits in two selected sites in Zambia, using a 10×10 alpha lattice design with two replications. Ninety-four of the test genotypes were profiled with 14,116 SNP markers.
Results: Number of pods plant-1 (NPP), pod length (PDL), and number of seeds pod-1 (NSP), were significantly (p<0.05) affected by genotype × environment interaction effects. Genotypes such as CP411, CP421, CP645, CP732, Chimponongo, and MS1-8-1-4 exhibited higher grain yield of > 1200 kg/ha with excellent performance in yield components such as NSP, PDL, HSW and GYD. Grain yield had significant (p<0.05) associations with NPP (r=0.50), NSP (r=0.46) and PDL (r=0.42) useful for simultaneous selection for yield improvement in cowpea. The SNP markers revealed gene diversity and polymorphic information content of 0.22 and 0.17, respectively, showing that the tested cowpea accessions were genetically diverse. Test genotypes were classified into four genetic groups irrespective of source of collection allowing selection and subsequent crosses to develop breeding populations for cultivar development.
Conclusions: Genotypes Bubebe, CP411, CP421, CP645, Chimponogo and MS1-8-1-4 were identified to be the most genetically divergent and high yielding making them ideal parental lines for breeding. This study provided a baseline information and identified promising cowpea genetic resources for effective breeding and systematic conservation.
Keywords
cowpea, genotypic diversity, phenotypic traits, SNP makers, population structure, yield components, Zambia
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CURRENT STATUS: Published
Version 2
Posted 13 Aug, 2020
Published
On 18 Sep, 2020
No community comments so far
Editorial decision: Accept
On 31 Aug, 2020
Editor assigned
On 09 Aug, 2020
Submission checks complete
On 08 Aug, 2020
Editor invited
On 08 Aug, 2020
No comments provided
Editorial decision: Minor revision
On 10 Jul, 2020
Review #1 received
Received 02 Jul, 2020
Review #2 received
Received 25 Jun, 2020
Reviewer #4 agreed
On 14 Jun, 2020
Reviewer #2 agreed
On 11 Jun, 2020
Reviewer #3 agreed
On 11 Jun, 2020
Reviewer #1 agreed
On 10 Jun, 2020
Reviewers invited
Invitations sent on 25 May, 2020
Editor assigned
On 05 May, 2020
First submitted
On 04 May, 2020
Submission checks complete
On 04 May, 2020
Editor invited
On 04 May, 2020
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This preprint is under consideration at BMC Genomic Data. A preprint is a preliminary version of a manuscript that has not completed peer review at a journal. Research Square does not conduct peer review prior to posting preprints. The posting of a preprint on this server should not be interpreted as an endorsement of its validity or suitability for dissemination as established information or for guiding clinical practice.
Learn more about In Review
Research article
Assessing the genetic diversity of cowpea [Vigna unguiculata (L.) Walp.] germplasm collections using phenotypic traits and SNP markers
Isack Mathew
University of KwaZulu-Natal
Corresponding Author
ORCiD: https://orcid.org/0000-0001-7358-4690
Badges
Prescreen
This manuscript passed our Prescreen assessment
Complete author information
Appropriate declaration statements
Potential risks to human health
Prescreen
Peer Review Timeline
CURRENT STATUS: Published
Version 2
Posted 13 Aug, 2020
Published
On 18 Sep, 2020
No community comments so far
Editorial decision: Accept
On 31 Aug, 2020
Editor assigned
On 09 Aug, 2020
Submission checks complete
On 08 Aug, 2020
Editor invited
On 08 Aug, 2020
No comments provided
Editorial decision: Minor revision
On 10 Jul, 2020
Review #1 received
Received 02 Jul, 2020
Review #2 received
Received 25 Jun, 2020
Reviewer #4 agreed
On 14 Jun, 2020
Reviewer #2 agreed
On 11 Jun, 2020
Reviewer #3 agreed
On 11 Jun, 2020
Reviewer #1 agreed
On 10 Jun, 2020
Reviewers invited
Invitations sent on 25 May, 2020
Editor assigned
On 05 May, 2020
First submitted
On 04 May, 2020
Submission checks complete
On 04 May, 2020
Editor invited
On 04 May, 2020
Metrics
Comments: 0
PDF Downloads: ...
HTML Views: ...
License:
This work is licensed under a CC BY 4.0 License. Read Full License
View the published version at BMC Genomic Data.
Background: Productivity of cowpea [Vigna unguiculata (L.) Walp] in sub-Sahara Africa is curtailed by a lack of farmer-preferred and improved cultivars and modern production technologies. The objectives of the study were to determine the extent of genetic diversity present among a collection of cowpea accessions from Zambia and Malawi using phenotypic traits and single nucleotide polymorphism (SNP) markers and, to select distinct and complementary parental lines for cultivar development. One hundred cowpea genotypes were evaluated for agronomic traits in two selected sites in Zambia, using a 10×10 alpha lattice design with two replications. Ninety-four of the test genotypes were profiled with 14,116 SNP markers.
Results: Number of pods plant-1 (NPP), pod length (PDL), and number of seeds pod-1 (NSP), were significantly (p<0.05) affected by genotype × environment interaction effects. Genotypes such as CP411, CP421, CP645, CP732, Chimponongo, and MS1-8-1-4 exhibited higher grain yield of > 1200 kg/ha with excellent performance in yield components such as NSP, PDL, HSW and GYD. Grain yield had significant (p<0.05) associations with NPP (r=0.50), NSP (r=0.46) and PDL (r=0.42) useful for simultaneous selection for yield improvement in cowpea. The SNP markers revealed gene diversity and polymorphic information content of 0.22 and 0.17, respectively, showing that the tested cowpea accessions were genetically diverse. Test genotypes were classified into four genetic groups irrespective of source of collection allowing selection and subsequent crosses to develop breeding populations for cultivar development.
Conclusions: Genotypes Bubebe, CP411, CP421, CP645, Chimponogo and MS1-8-1-4 were identified to be the most genetically divergent and high yielding making them ideal parental lines for breeding. This study provided a baseline information and identified promising cowpea genetic resources for effective breeding and systematic conservation.
Figure 1
Figure 2
Figure 3
Due to technical limitations, full-text HTML conversion of this manuscript could not be completed. However, the manuscript can be downloaded and accessed as a PDF.