Mitochondrial D-loop diversity of grasscutter (&amp;lt;i&amp;gt;Thryonomys swinderianus&amp;lt;/i&amp;gt; Rodentia: Hystricomorpha) in Ghana

Adenyo, Christopher; Hayano, Azusa; Kayang, Boniface B.; Owusu, Erasmus H.; Inoue‐Murayama, Miho

doi:10.4236/ojas.2013.33022

Cited by 7 publications

(11 citation statements)

References 32 publications

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“…Other works reported in the literature include: characterization of the estrus cycle, determination of the ovulatory mechanisms, detection of mating and pregnancy, efficacy of vaginal mucous plug formation in pregnancy detection, and efficacy of sex determination using ano‐genital distance, amongst others. More recently, advanced techniques such as the use of mitochondrial D‐loop and double‐digest restriction‐site associated DNA (RAD) sequencing markers (single nucleotide polymorphisms, SNPs) have been deployed to improve understanding of genetic diversity in the GCR and for genetic management of production …”

Section: Resultsmentioning

confidence: 99%

A study of scientific publications on the greater cane rat (Thryonomys swinderianus, Temminck 1827)

Mustapha

Teriba

Ezekiel

et al. 2020

Anim Models and Exp Med

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Background: The greater cane rat (GCR), reputed to be African's second largest rodent, is a precocial hystricomorph with an uncommon phenotype and life history. Scientific and socio-economic interests in the GCR have led to heightened research efforts targeted towards a better understanding of its biology and exploration of its economic and translational usefulness.Methods: Records of all online scientific publications on the GCR from Google, Google Scholar, PubMed, science.gov, Ebscohost and Worldwide science, with the exception of research theses, proceedings, unpublished projects and abstracts, were collated and analyzed using descriptive statistics. Results:A total of 146 published scholarly articles spanning about six decades were retrieved, with 98% of the GCR publications originating from African countries. Nigeria boasts the highest number of publications (58.22%) followed by Ghana (21.23%) and South Africa (5.48%) while Senegal contributed the least (0.69%).Publications were sorted into ten field categories. The field with the highest number of articles (41.78%) was animal breeding and management recording, closely followed by anatomy (37.67%). Lesser contributions were made by parasitology (5.48%), biochemistry/hematology (4.8%), pharmacology/toxicology (4.11%), pathology (2.06%), and surgery/anesthesia and physiology (1.37% apiece). The fields with fewest contributions were microbiology and developmental biology (0.69% each). Conclusion:This study chronicles the spectrum of knowledge available on the GCR, highlighting the knowledge gap that still exists in various fields in order to provide advocacy for new frontiers in research efforts on this rodent. We suggest the need for a clearly defined and well integrated national/regional policy aimed at establishing Africa's foremost micro-livestock rodent, the greater cane rat, on the world's scientific radar. K E Y W O R D SAfrican rodent, grasscutter, greater cane rat, micro-livestock, review, wildlife | 41 MUSTAPHA eT Al.

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Section: Resultsmentioning

confidence: 99%

A study of scientific publications on the greater cane rat (Thryonomys swinderianus, Temminck 1827)

Mustapha

Teriba

Ezekiel

et al. 2020

Anim Models and Exp Med

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“…Amplification of a ~650 bp fragment of the cytochrome c oxidase I (COI) gene was performed using primers designed by Gaubert et al (2014). A fragment of ~500 bp was amplified for the mitochondrial D-loop region using primers reported by Adenyo et al (2013). PCR setup was performed in a DNA free laboratory, and all working surfaces were decontaminated using a 1.25% hypochlorite solution, prior to setup.…”

Section: Dna Amplification and Sequencingmentioning

confidence: 99%

“…Previously reported COI (n = 23; accession numbers: KJ192912-KJ192913, Equatorial Guinea; KJ192933-KJ192949, Ghana; KJ192950-KJ192953 and KJ192955, Nigeria) and D-loop (n = 26; accession numbers: AB675385-AB675410, Ghana) sequences were downloaded from GenBank for downstream analyses (Adenyo et al 2013;Gaubert et al 2014). Sequence assembly and editing of sequences obtained from the current study were performed with GENEIOUS R9 software (Kearse et al 2012).…”

Section: Sequence Analysismentioning

confidence: 99%

“…The majority of research on T. swinderianus has been performed in western and central Africa (Mustapha et al 2020;Kilwanila et al 2021). Phylogenetic and genetic diversity studies are generally scarce, with a number of molecular studies from Ghana (Adenyo et al 2013;Adenyo et al 2016;Adenyo et al 2017a;Adenyo et al 2017b) and Nigeria (Coker et al 2017). Several morphological phylogenetic studies using fossil evidence has been conducted on the family Thryonomyidae (López Antoñanzas et al 2004;Kraatz et al 2013).…”

Section: Introductionmentioning

confidence: 99%

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A phylogeographic assessment of South African greater cane rats (Thryonomys swinderianus): Preliminary insights

Coetzer¹

2023

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The greater cane rat (Thryonomys swinderianus) is an African rodent with a wide Sub-Saharan distribution range. This species is viewed as an important protein source in many African countries. These rodents are also regularly viewed as a pest species who frequently raid croplands in agricultural settings. No phylogenetic work has to date been published on T. swinderianus from southern Africa. This paper therefore reports the first phylogenetic assessment on the species across the South African distribution range. Thirty samples were sourced from local museum collections, with one direct submission by a member of the public who found a rodent carcass identified as T. swinderianus west of its known distribution range in the Eastern Cape Province of South Africa. Two mitochondrial loci previously used in West African studies of this species were used in the current study to asses T. swinderianus population genetic diversity and phylogenetic structure across the South African distribution. A comparison to sequence data from West Africa was also performed. A divergence time estimation was conducted to further investigate the evolutionary history of the South African sub-population. Similar genetic diversity estimates were observed for the South African sub-population when compared to the West African datasets. Specimens from the eastern parts of South Africa showed higher genetic diversity estimates, possibly indicative of an initial colonisation site from eastern Africa. Two distinct phylogenetic clades were identified by Bayesian inference, forming distinct West African and South African groups. The divergence estimates showed similar ages for the T. swinderianus most recent common ancestor (MRCA) as previously reported. The MRCA estimates for the South African group identified a possible middle to late Pleistocene migratory event from eastern African into southern Africa. Further fine scale sampling across the African distribution range is however needed to provide more accurate assessments for future conservation management planning for the different sub-populations, as needed.

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“…Previous studies on grasscutter at the population genetics level are scarce and with limited scope. For example, Adenyo et al (2013) studied exclusively Ghanaian grasscutter population using mitochondrial D-loop region, while other studies have employed microsatellite markers (Adenyo et al, 2017;Coker et al, 2017). Another study on bush meat included grasscutter mitochondrial markers (Gaubert et al, 2015) but did not focus on grasscutter population genetics.…”

Section: Introductionmentioning

confidence: 99%

Population structure and evolutionary history of the greater cane rat (Thryonomys swinderianus) from the Guinean Forests of West Africa

Babarinde

Adeola²,

Djagoun³

et al. 2023

Front. Genet.

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Grasscutter (Thryonomys swinderianus) is a large-body old world rodent found in sub-Saharan Africa. The body size and the unique taste of the meat of this major crop pest have made it a target of intense hunting and a potential consideration as a micro-livestock. However, there is insufficient knowledge on the genetic diversity of its populations across African Guinean forests. Herein, we investigated the genetic diversity, population structures and evolutionary history of seven Nigerian wild grasscutter populations together with individuals from Cameroon, Republic of Benin, and Ghana, using five mitochondrial fragments, including D-loop and cytochrome b (CYTB). D-loop haplotype diversity ranged from 0.571 (± 0.149) in Republic of Benin to 0.921 (± 0.013) in Ghana. Within Nigeria, the haplotype diversity ranged from 0.659 (± 0.059) in Cross River to 0.837 (± 0.075) in Ondo subpopulation. The fixation index (FST), haplotype frequency distribution and analysis of molecular variance revealed varying levels of population structures across populations. No significant signature of population contraction was detected in the grasscutter populations. Evolutionary analyses of CYTB suggests that South African population might have diverged from other populations about 6.1 (2.6–10.18, 95% CI) MYA. Taken together, this study reveals the population status and evolutionary history of grasscutter populations in the region.

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Mitochondrial D-loop diversity of grasscutter (<i>Thryonomys swinderianus</i> Rodentia: Hystricomorpha) in Ghana

Cited by 7 publications

References 32 publications

A study of scientific publications on the greater cane rat (Thryonomys swinderianus, Temminck 1827)

A study of scientific publications on the greater cane rat (Thryonomys swinderianus, Temminck 1827)

A phylogeographic assessment of South African greater cane rats (Thryonomys swinderianus): Preliminary insights

Population structure and evolutionary history of the greater cane rat (Thryonomys swinderianus) from the Guinean Forests of West Africa

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