<i>Coffea anthonyi</i>, a new self‐compatible Central African coffee species, closely related to an ancestor of <i>Coffea arabica</i>

Stoffelen, Piet; Noirot, Michel; Couturon, Emmanuel; Bontems, S.; Block, Petra De; Anthony, François

doi:10.1002/tax.581014

Cited by 21 publications

(20 citation statements)

References 57 publications

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“…The phylogenetic relationships based on nucleotide sequences were not congruent with either morphological and biochemical classifications (Stoffelen 1998;Dussert et al 2008) or with the adaptive capacity to grow in specific environments. For example, only three smallleaved species are known in Central Africa: C. anthonyi (Stoffelen et al 2009), C. charrieriana (Stoffelen et al 2008) and C. kapakata (Chevalier 1947;Bridson 1994). In our study, the first species was placed in the clade A-IO while the two others were placed in the clade G-C. Fig.…”

Section: Adaptation and Speciationmentioning

confidence: 42%

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Adaptive radiation in Coffea subgenus Coffea L. (Rubiaceae) in Africa and Madagascar

et al. 2010

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Phylogeographic analysis of the Coffea subgenus Coffea was performed using data on plastid DNA sequences and interpreted in relation to biogeographic data on African rain forest flora. Parsimony and Bayesian analyses of trnL-F, trnT-L and atpB-rbcL intergenic spacers from 24 African species revealed two main clades in the Coffea subgenus Coffea whose distribution overlaps in west equatorial Africa. Comparison of trnL-F sequences obtained from GenBank for 45 Coffea species from Cameroon, Madagascar, Grande Comore and the Mascarenes revealed low divergence between African and Madagascan species, suggesting a rapid and radial mode of speciation. A chronological history of the dispersal of the Coffea subgenus Coffea from its centre of origin in Lower Guinea is proposed. No relation was found between phylogenetic topology and the age of emergence of the volcanic islands that Coffea species have colonised in the Indian Ocean, suggesting dispersal from mainland Africa after the emergence of the youngest island, Grande Comore, 500,000 years ago. Additional sequences were obtained from GenBank for 24 species of other Rubiaceae genera, including the Rubia genus whose origin has been dated from the Upper Miocene. Estimates of substitution rates suggested that diversification in Coffea subgenus Coffea occurred about 460,000 years ago or as recently as the last 100,000 years, depending on the cpDNA region considered and calibration. The phylogenetic relationships based on plastid sequences confirmed biogeographic differentiation of coffee species, but they were not congruent with morphological and biochemical classifications, or with the capacity to grow in specific environments. Examples of convergent evolution in the main clades are given using characters of leaf size, caffeine content and reproductive mode.

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Section: Adaptation and Speciationmentioning

confidence: 42%

“…(Coulibaly et al 2002) and C. anthonyi Stoff. & F. Anthony (Stoffelen et al 2009), which are self-compatible.…”

Section: Introductionmentioning

confidence: 99%

Adaptive radiation in Coffea subgenus Coffea L. (Rubiaceae) in Africa and Madagascar

et al. 2010

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“…The two widely cultivated species are Coffea arabica and Coffea canephora. C. arabica is the only autogamous tetraploid species (2n = 4x = 44) in the coffea genus, whereas, the remaining are diploid self-incompatible with exception of two self-compatible species, C. heterocalyx and C. anthonyi (Stoffelen et al 2009;Nowak et al 2011). C. arabica descended from a relatively recent hybridization between C. canephora and C. eugenoides and other ecotypes and is native to central Ethiopian highlands (Anthony et al 2002;Silvestrini et al 2007;Cenci et al 2012).…”

Section: Introductionmentioning

confidence: 96%

Characterization and utilization of microsatellites in the Coffea canephora genome to assess genetic association between wild species in Kenya and cultivated coffee

Ogutu

Fang

Lin

et al. 2016

Tree Genetics & Genomes

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Coffee is an important beverage crop in the world and has a significant contribution to Kenya's economy. Here, we analyzed the genome-wide distribution of microsatellites in the Coffea canephora genome. A total of 159,041 SSRs were identified, with an overall density of 308 SSRs per Mb. Tetra-nucleotide repeats are the most abundant, accounting for 32 % of the total SSRs. AT-rich motifs are dominant across all SSR repeat units, while GC-rich motifs were generally rare. A set of 100 SSRs was selected to amplify 96 coffee accessions, including 10 wild accessions collected from Mt. Marsabit (Kenya). Of these SSRs, 33 % generated clear polymorphic bands among all tested accessions, with an average of 3.9 alleles per SSR locus. Wild coffee species from Mt. Marsabit showed a close genetic similarity with cultivated accessions in Kenya, suggesting that the wild species in Mt. Marsabit played an important role in the domestication of cultivated coffee in Kenya. Significantly low pairwise genetic divergence was observed between cultivated and wild accessions in Kenya, suggesting a relatively narrow level of genetic basis among coffee germplasm in Kenya. In addition, cultivated and wild coffee accessions in Kenya show a great divergence from those in other countries. Our results not only provide molecular tools for genetic studies in coffee but are also helpful for conservation and coffee breeding programs in Kenya.

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“…The habitus of C. kivuensis is very similar to that of C. arabica and both species have similar leaf, flower, and fruit characteristics. Furthermore, C. heterocalyx and C. anthonyi are, together with C. arabica , the only known self-compatible species in Coffea (Coulibaly et al ., 2002; Stoffelen et al ., 2009). Taken together, and despite all these research efforts, the origin of C. arabica remains elusive.…”

Section: Introductionmentioning

confidence: 99%

“…Taken together, and despite all these research efforts, the origin of C. arabica remains elusive. The unambiguous inference of the phylogenetic relationships between C. arabica and its relatives remains crucial to understand the evolutionary history of these species (Tesfaye et al ., 2007; Stoffelen et al ., 2009).…”

Section: Introductionmentioning

confidence: 99%

Phylogenomic analysis clarifies the evolutionary origin of Coffea arabica L

Bawin

Ruttink

Staelens

et al. 2020

Preprint

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12Interspecific hybridization events have played a major role in plant speciation, yet, the 13 evolutionary origin of hybrid species often remains enigmatic. Here, we inferred the 14 evolutionary origin of the allotetraploid species Coffea arabica, which is widely cultivated for 15 Arabica coffee production. 16 We estimated genetic distances between C. arabica and all species that are known to be closely 17 related to C. arabica using genotyping-by-sequencing (GBS) data. In addition, we 18 reconstructed a time-calibrated multilabeled phylogenetic tree of 24 species to infer the age of 19 the C. arabica hybridization event. Ancestral states of self-compatibility were also 20 reconstructed to infer the evolution of self-compatibility in Coffea. 21C. canephora and C. eugenioides were confirmed as the putative progenitor species of C. 22 arabica. These species most likely hybridized between 1.08 million and 543 thousand years 23 ago. 24 We inferred the phylogenetic relationships between C. arabica and its closest relatives and shed 25 new light on the evolution of self-compatibility in Coffea. Furthermore, the age of the 26 hybridization event coincides with periods of environmental upheaval, which may have induced 27 range shifts of the progenitor species that facilitated the emergence of C. arabica. 28 29 2006). Using genomic in-situ hybridization (GISH) and Restriction fragment length 1 polymorphism (RFLP) markers, C. canephora Pierre ex A.Froehner and C. eugenioides 2 S.Moore have been identified as the closest extant relatives of C. arabica (Lashermes et al., 3 1999). Although cytogenetic methods such as GISH are considered reliable for studying 4 hybridization (Chester et al., 2010), a certain ambiguity remains regarding the progenitor 5 species of C. arabica. Based on GISH and fluorescence in-situ hybridization (FISH), Raina et 6 al. (1998) suggested C. congensis A.Froehner as progenitor species of C. arabica instead of C. 7 canephora. Hamon et al. (2009), however, could not discriminate between C. canephora and 8 C. congensis as putative progenitor of C. arabica using FISH and fluorochrome banding (CMA, 9 DAPI). Moreover, genetic divergence in plastid DNA regions or in the internal transcribed 10 spacer (ITS) sequence were too low to resolve phylogenetic relationships between C. arabica 11 and other Coffea species (

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Coffea anthonyi, a new self‐compatible Central African coffee species, closely related to an ancestor of Coffea arabica

Cited by 21 publications

References 57 publications

Adaptive radiation in Coffea subgenus Coffea L. (Rubiaceae) in Africa and Madagascar

Adaptive radiation in Coffea subgenus Coffea L. (Rubiaceae) in Africa and Madagascar

Characterization and utilization of microsatellites in the Coffea canephora genome to assess genetic association between wild species in Kenya and cultivated coffee

Phylogenomic analysis clarifies the evolutionary origin of Coffea arabica L

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