Characterization of new microsatellite loci isolated from <i>Santiria trimera</i> (Burseraceae)

Koffi, K. Guillaume; Heuertz, Myriam; Jans, Romain; Hardy, Olivier J.; Vendramin, Giovanni G.; Duminil, Jérôme

doi:10.3732/ajb.1200041

Cited by 5 publications

(5 citation statements)

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“…In this study, all the genetic diversity variables of C. gileadensis showed a modest to extreme decline in measurements among all the enduring populations analysed and was in agreement with other studies on closely related plant species of Burseraceae. This indicates an extensive decline in gene diversity and meets the corresponding severe environmental circumstances [28][29][30][31][32][33][34] confirmed by the comparison of the high genetic differentiation F ST values, which measured for C. gileadensis (F ST = 0.896) with other rare plant species in similar plant habitats in South Sinai, and they revealed considerable values of genetic differentiation, e.g., Primula boveana (F ST = 0.737) [35] and Cotoneaster orbicularis (F ST = 0.634) [32].…”

Section: Discussionmentioning

confidence: 97%

“…Isolation of DNA from the preserved leaflet samples for 600 plant individuals was performed using a DNeasy Plant Mini Kit (Qiagen, Germantown, MD, USA). Fifty loci revealing polymorphisms were recognized using sixty-one formerly published primers for other species belonging to the Burseraceae family [28][29][30][31]. The polymorphic primer tests were performed for all sampled individuals (Table S1).…”

Section: Genomic Dna Extraction and Pcr Testsmentioning

confidence: 99%

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Population Genetics, Genetic Structure, and Inbreeding of Commiphora gileadensis (L.) C. Chr Inferred from SSR Markers in Some Mountainous Sites of Makkah Province

Mansour

Alamer

Al-Hasawi

2023

Plants

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Commiphora gileadensis (L.) C. Chr is a perennial plant existing mainly in the southern and western mountains of the Arabian Peninsula. In the Makkah province, the remaining populations are threatened by many factors such as overcutting, overgrazing, and urban developments. These dangers are expected to be aggravated by the progression of aridification factors arising from climate change. To overcome the decline in remaining populations of this valuable species, a timely evaluation of the population’s genetic variables and genetic structure is vital for the conservation of existing C. gileadensis populations. In this study, we used 61 SSR primers to achieve this objective. Only 50 loci showed polymorphisms, which led to further analysis of the population genetics for 600 genotypes that were collected from 50 populations of C. gileadensis found in 10 different sites in the Makkah region: Gebel Al Muliesaa, Wadi Albathna, Wadi Houra, Wadi Albaidaa, Wadi Elebiedia, Gebel Kniethl, Wadi Sayaa, Wadi Elbarasa, Wadi Alfawara, and Wadi Alkharar. The results showed an obvious decrease in genetic diversity variables in all studied populations. The range of PPL was between 8 and 40; additionally, the low HT value of 0.804 and the high value of inbreeding, Fis = 0.238, reflected a severe lack of heterozygotes. High levels of FST and GST and low gene flow indicate considerable segregation among the C. gileadensis populations, which creates a barrier to gene migration. Our data suggest the need for conservation planning for C. gileadensis in order to avoid the species’ forthcoming extinction. Efforts should be largely oriented around managing water consumption, prohibiting overcutting and overgrazing, and establishing appropriate seed banks.

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Section: Discussionmentioning

confidence: 97%

Section: Genomic Dna Extraction and Pcr Testsmentioning

confidence: 99%

Population Genetics, Genetic Structure, and Inbreeding of Commiphora gileadensis (L.) C. Chr Inferred from SSR Markers in Some Mountainous Sites of Makkah Province

Mansour

Alamer

Al-Hasawi

2023

Plants

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“…Stilt roots and leaflet size:-Three morphotypes were defined by Koffi et al (2010Koffi et al ( , 2011Koffi et al ( , 2012 based on the absence of stilt roots (NSR), or the presence of stilt roots combined with small leaflets (SRsl) or with large leaflets (SRll). The SRsl and SRll morphotypes were clearly delimited using nuclear and chloroplast DNA sequences from samples collected in northern Gabon (Koffi 2010).…”

Section: Discussionmentioning

confidence: 99%

“…DNA extraction, amplification and genotyping:-Total genomic DNA was extracted from 15-25 mg dry plant material, using the NucleoSpin 96 Plant II kit (Macherey-Nagel, Düren, Germany) for silica-dried material or the Ancient Seeds aDNA extraction protocol 1.15 (Cappellini 2011) after grinding with a Retsch MM 301 (Germany) instrument for herbarium specimens without silica-dried material. Eight polymorphic nuclear microsatellite markers originally developed for Dacryodes Vahl (1810: 115) (St03, St05) (Born 2007) and Santiria (Santri07, Santri10, Santri15, Santri20, Santri26 and Santri27) (Koffi et al 2012), were used for genotyping 479 georeferenced individuals and 59 seeds. We included seeds to test hybridization between morphotypes observed in sympatry.…”

Section: Methodsmentioning

confidence: 99%

Combining morphology and population genetic analysis uncover species delimitation in the widespread African tree genus Santiria (Burseraceae)

et al. 2017

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Taxonomic classification based on morphology alone can prove difficult. This is the case of the polymorphic forest tree species Santiria trimera in Africa, whose classification has remained controversial for over a century. Studies combining chloroplast and nuclear DNA sequences show the existence of several phylogenetic clades in this taxon, with some occurring in sympatry in western Central Africa suggesting the existence of at least two species. By combining genetic and morphological markers, we aim to assess the species delimitation in the Santiria species complex. Morphological trait (trunk, leaflet, flower and fruit characteristics) analysis using 223 standing individuals and 103 herbarium samples were combined with genetic analyses using 479 individuals genotyped at eight microsatellite markers. Genetic clusters were identified using Bayesian assignment in order to delimit species following the Biological Species Concept and to identify distinctive characters from morphometric analyses in retrospect. Three genetic clusters were identified and found to occur in sympatry. The type of inflorescence and the colour of unripe fruit were the most discriminant morphological traits among those genetic clusters, while many quantitative traits showed overlapping distributions between genetic clusters and explain the difficulty encountered by previous botanists to resolve the taxonomy of Santiria. The combination of genetic and morphological data suggests the presence of three species within the taxon Santiria trimera from western Central Africa. This work should guide a taxonomic revision within the genus Santiria in Africa.

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“…Plus récemment, des études combinant des données morphologiques et des séquences d'ADN (nucléaires et chloroplastiques) ont montré l'existence, dans les forêts du nord-est du Gabon, d'au moins deux groupes génétiquement isolés, ainsi que la présence d'un clade correspondant aux individus présents sur l'île de São Tomé (Koffi et al, 2010(Koffi et al, , 2011(Koffi et al, , 2012. Ikabanga et al (2017) confirment ces résultats en révélant l'existence d'un troisième cluster génétique dans le Bas-Guinéen, zone phytogéographique allant du sud-ouest du Nigéria au nord de l'Angola (White, 1983), avec la particularité d' être en sympatrie dans les forêts du Gabon et de la République du Congo.…”

Section: Introductionunclassified

Révision taxonomique du genre Santiria (Burseraceae) en Afrique tropicale

Ikabanga¹,

Koffi²,

Onana³

et al. 2019

Candollea

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In Tropical Africa, the genus Santiria Blume (Burseraceae) was considered as having one species, Santiria trimera (Oliv.) H.J. Lam ex Aubrév. The recent studies combining morphometric and molecular analysis revealed four isolated genetic groups that can be distinguished with clear morphological features. Following this study, a taxonomic revision of Santiria is conducted in tropical Africa, including the islands of the Gulf of Guinea. Four species are recognized: in addition to Santiria trimera, taxa previously described as Santiria balsamifera Oliv., Santiria ebo (Pierre) H.J. Lam and Santiria obovata (Pierre) H.J. Lam are re-established. Morphological distinctive traits that differentiate the four species are abundance of the elemi, presence/absence of lenticels on the twigs, pubescence of the inflorescence, and immature fruit color. A taxonomic key is provided. Three neotypes and two lectotypes are designated (including synonyms). Each species is described, affinities with other taxa, uses, field pictures and a preliminary conservation status according to the IUCN Categories and Criteria are provided.

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Characterization of new microsatellite loci isolated from Santiria trimera (Burseraceae)

Abstract: These microsatellite markers are promising to explore the genetic delimitation among sympatric morphotypes found in Gabonese forests and to study the spatial genetic structure within each gene pool.

Cited by 5 publications

References 8 publications

Population Genetics, Genetic Structure, and Inbreeding of Commiphora gileadensis (L.) C. Chr Inferred from SSR Markers in Some Mountainous Sites of Makkah Province

Population Genetics, Genetic Structure, and Inbreeding of Commiphora gileadensis (L.) C. Chr Inferred from SSR Markers in Some Mountainous Sites of Makkah Province

Combining morphology and population genetic analysis uncover species delimitation in the widespread African tree genus Santiria (Burseraceae)

Révision taxonomique du genre Santiria (Burseraceae) en Afrique tropicale

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