Evidence map›Paper›PMID 31907723›Full record

ArticleTropical animal health and production2020

Population structure of indigenous southern African goats based on the Illumina Goat50K SNP panel.

P I Monau, C Visser, F C Muchadeyi, M Okpeku, S J Nsoso, E Van Marle-Köster

Abstract readComparative Study
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In one paragraph

Article in Tropical animal health and production, 2020. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 11 papers.

0numbers the graph read from it
0cells of the map it votes in
11citing papers in PubMed
–field-weighted citation impact
1 · What the graph read from it

What it found

Each row is one number read from the abstract, on the scale the paper reported it, with its interval. Left of the dashed line favours the treatment, right favours the comparator. Under each row is the sentence it came from. New to these charts? A ten-minute tutorial.

The abstract states no effect estimate the extractor could read, or names no intervention and outcome on the map, so this paper lights no cell and moves no belief. It is still indexed, cited and linked below.

2 · The registry

The trial behind it

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3 · Its place in the literature

Who cites it

11 citing papers in PubMed.

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4 · The record

Corrections and comments

PubMed lists nothing against this paper. Absence here is not a guarantee, only a check that was made.

5 · Who and what money

Authors and funding

6 authors.

P I MonauDepartment of Animal and Wildlife Sciences, University of Pretoria, Pretoria, 0002, South Africa.ORCID http://orcid.org/0000-0002-6992-1161
C VisserDepartment of Animal and Wildlife Sciences, University of Pretoria, Pretoria, 0002, South Africa.
F C MuchadeyiAgricultural Research Council, Biotechnology Platform, Private Bag X5, Onderstepoort, 0110, South Africa.
M OkpekuDiscipline of Genetics, School of Life Sciences, University of KwaZulu-Natal (Westville Campus), Durban, South Africa.
S J NsosoDepartment of Animal Science, Botswana University of Agriculture and Natural Resources, Private bag, 0027, Gaborone, Botswana.
E Van Marle-KösterDepartment of Animal and Wildlife Sciences, University of Pretoria, Pretoria, 0002, South Africa. phetogomonau@gmail.com.

Funding

No grant is acknowledged in the PubMed record.

6 · The paper itself

Abstract

In this study, the genetic structure of indigenous Tswana and Swazi goats using the Illumina Goat50K SNP array was investigated. Two South African commercial goat breeds were included to investigate admixture with the indigenous populations in southern Africa. A total of 144 DNA samples including Boer goats (n = 24), Kalahari Red (n = 24), Swazi (n = 48), and Tswana goats (n = 48) were genotyped. Statistical analysis was performed using PLINK version 1.07. Genetic diversity, measured as expected heterozygosity, was estimated at 0.390, 0.398, 0.413, and 0.387 for Boer, Kalahari Red, Tswana, and Swazi goats, respectively. The individual inbreeding coefficient varied from 0.019 ± 0.05 to 0.011 ± 0.06 for the Tswana and Swazi goats, respectively. The Principal component analysis clustered the populations according to geographical origin and breed type. Linkage disequilibrium (LD) for shorter intervals (0-10 kb) ranged from 0.44 to 0.56 and commercial breeds had higher values. Effective population sizes decreased with generations and at the 13th generation ranged between 87 for Boer to 266 for Tswana goats. The Tswana population exhibited the highest level of genetic variation and effective population size, which holds potential for improved production in marginal regions. A national strategy is required to maintain genetic diversity in communal goat production systems through well-structured breeding and conservation programs.

Indexed as

Polymorphism, Single NucleotideAfrica, SouthernAnimalsBotswanaBreedingGenetics, PopulationGenotypeGoatsHeterozygoteInbreedingLinkage DisequilibriumPhylogeographyPopulation DensityPrincipal Component AnalysisAdmixtureBreed diversitySwaziTswana goats

Identifiers

PMID31907723

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Read under generation 80e0d062 · epoch 390. Bibliography from PubMed, PubMed Central and OpenAlex; grants from NIH RePORTER; trial links from ClinicalTrials.gov; estimates, votes and beliefs from the OpenQuestion graph.