Development and characterization of microsatellite loci in the marsh deer (Blastocerus dichotomus Cervidae)

Oliveira, Eddy José Francisco de; Garcia, José Fernando; Duarte, José Maurício Barbanti; Contel, E. P. B.

doi:10.1007/s10592-008-9769-9

Cited by 5 publications

(5 citation statements)

References 5 publications

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“…The observed heterozygosity results are lower than those obtained for other cervid species (Table 3), except the South Andean deer, which has slightly lower heterozygosity levels, probably resulting from very low (<2000 individuals) population size (Corti et al, 2011). Curiously, the highest reported heterozygosity (mean He=0.765) is for the Pantanal population of the same species we studied (Oliveira et al, 2009). We tried to reproduce the analyses using the same nine loci described by those authors, but most loci failed to amplify with our tissue and feces samples even after many rounds of optimization.…”

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confidence: 74%

“…The only locus that did amplify (Bdc65) was monomorphic in our samples. It is unclear if the differences between our results and those from Oliveira et al (2009) reflect actual biological differences (related, for example, to larger populations sizes of deer populations in the Pantanal) or to technical problems related to the set of microsatellites described by them.…”

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confidence: 56%

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Low STR variability in the threatened marsh deer, Blastocerus dichotomus, detected through amplicon sequencing in non-invasive samples

et al. 2022

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Blastocerus dichotomus is the largest deer in South America. We have used 25 microsatellite markers detected and genotyped by Next Generation Sequencing to estimate the genetic variability of B. dichotomus in Argentina, where most of its populations are threatened. Primer design was based on the sequence of a shallow partial genome (15,967,456 reads; 16.66% genome coverage, mean depth 1.64) of a single individual. From the thousands of microsatellite loci found, even under high stringency selection, we chose and tested a set of 80 markers on 30 DNA samples extracted from tissue and feces from three Argentinean populations. Heterozygosity levels were low across all loci in all populations (H=0.31 to 0.40). Amplicon sequencing is a fast, easy, and affordable technique that can be very useful for the characterization of microsatellite marker sets for the conservation genetics of non-model organisms. This work is also one of the first ones to use amplicon sequencing in non-invasive samples and represents an important development for the study of threatened species.

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confidence: 74%

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confidence: 56%

Low STR variability in the threatened marsh deer, Blastocerus dichotomus, detected through amplicon sequencing in non-invasive samples

et al. 2022

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“…The genetic variability indices (H E : 0.41–0.43, Table 1 ) were low and similar among all localities, well below the heterozygosity values reported for the population of B. dichotomus from the Brazilian Pantanal, a population in a better conservation status (H E : 0.77) 52 . This is likely related to a drastic reduction in population sizes and then a rapid and recent growth such as that recorded in the three populations studied after the creation of protected areas 10 , 53 .…”

Section: Discussionmentioning

confidence: 60%

“…NF individuals appear mostly in a zone of low genetic differentiation, while FA individuals are in a zone of high genetic differentiation. The area between FA and NF (where there are no individuals or the population density is extremely low 52 ) indicates a marked change in genetic similarity, suggesting a barrier to gene flow. We didn’t find any evidence that there’s an isolation by distance pattern in the area (R = 0.07, p > 0.05).…”

Section: Resultsmentioning

confidence: 99%

Southern marsh deer (Blastocerus dichotomus) populations assessed using Amplicon Sequencing on fecal samples

Wolfenson,

Pereira,

Ruzzante

et al. 2024

Sci Rep

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Populations in isolated and small fragments lose genetic variability very fast and are usually of conservation concern because they are at greater risk of local extinction. The largest native deer in South America, Blastocerus dichotomus (Illiger, 1815), is a Vulnerable species according to the IUCN categorization, which inhabits tropical and subtropical swampy areas. In Argentina, its presence has been restricted to four isolated fragments. Here we examine the genetic diversity and differentiation among three of them, including the three different patches that form the southernmost population, using 18 microsatellite markers genotyped by Amplicon Sequencing of DNA extracted from fecal samples. Genetic diversity was low (HE < 0.45) in all three populations studied. We found three genetic clusters compatible with the geographic location of the samples. We also found a metapopulation dynamics that involves the patches that make up the southernmost population, with evidence of a barrier to gene flow between two of them. Our results point to the creation of a corridor as a necessary and urgent management action. This is the first study, at the population level, employing microsatellite genotyping by Amplicon Sequencing with non-invasive samples in an endangered species.

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“…However, the low genetic diversity in all other European populations indicates that the former explanation is more likely. OLIVEIRA et al 2008)), and they all showed low genetic polymorphism just like in fallow deer. The causes in this species are mainly inbreeding and their polygamous mating system (OLIVEIRA et al 2005).…”

Section: Resultsmentioning

confidence: 97%

Testing of microsatellite markers for individual identification of fallow deer

ZORKÓCZY,

TURI,

LEHOTZKY

et al. 2023

Danub. Anim. Genet. Resour.

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The fallow deer (Dama dama) of Hungary has excellent value to our country due to its game meat and antler trophies. As an attempt to aid law enforcement against illegal activities, such as poaching, illegal trading, and in other cases like traffic accidents, we aimed to develop a genetic marker set suitable for individual identification. During our research, 28 microsatellite markers on 15 fallow deer samples from two different populations were tested. Four microsatellites were found to be polymorphic, each with two or three alleles. Based on our current results, Hungarian fallow deer populations show low genetic diversity. This is in agreement with previous studies conducted on the species and is probably a direct result of the species’ past extinction from the most of Europe during the Pleistocene and later its human-mediated reintroduction to most of its current range. The low number of polymorphic markers presents the need to include additional markers.fallow deer

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Development and characterization of microsatellite loci in the marsh deer (Blastocerus dichotomus Cervidae)

Cited by 5 publications

References 5 publications

Low STR variability in the threatened marsh deer, Blastocerus dichotomus, detected through amplicon sequencing in non-invasive samples

Low STR variability in the threatened marsh deer, Blastocerus dichotomus, detected through amplicon sequencing in non-invasive samples

Southern marsh deer (Blastocerus dichotomus) populations assessed using Amplicon Sequencing on fecal samples

Testing of microsatellite markers for individual identification of fallow deer

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