Looks can be deceiving: species delimitation reveals hidden diversity in the freshwater crab Aegla longirostri (Decapoda: Anomura)

Crivellaro, Marcelo Schüler; Zimmermann, Bianca Laís; Bartholomei-Santos, Marlise Ladvocat; Crandall, Keith A.; Pérez‐Losada, Marcos; Bond‐Buckup, Georgina; Santos, Sandro

doi:10.1093/zoolinnean/zlx030

Cited by 19 publications

(10 citation statements)

References 75 publications

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“…The GMYC is a robust method that models branching thresholds for intraspecific (coalescent) and interspecific (speciation/diversification) patterns (Fujisawa and Barraclough 2013). This approach has been widely applied in a number of studies to identify cryptic diversity within morphologically defined species (e.g., Crivellaro et al 2017;Grabowski et al 2017;Kordbacheh et al 2017). The ultrametric trees for GMYC analyses were estimated in BEAST (Drummond and Rambaut 2007) using two priors (Yule model and Coalescent model with constant population size) and two rates of molecular evolution (constant and relaxed clock).…”

Section: Data Analysesmentioning

confidence: 99%

Evidence of hidden diversity and taxonomic conflicts in five stream fishes from the Eastern Zimbabwe Highlands freshwater ecoregion

Chakona¹,

Kadye²,

Bere³

et al. 2020

Preprint

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Stream fishes of the Eastern Afromontane region are among the least studied vertebrates in this region, despite the potential for harbouring cryptic diversity. The present study examined mitochondrial cytochrome oxidase subunit I (COI) sequence divergence in 153 specimens of stream fishes belonging to four genera and three families, [(Amphilius and Zaireichthys (Amphiliidae); Chiloglanis (Mochokidae); and Hippopotamyrus (Mormyridae)], in the Eastern Zimbabwe Highlands (EZH) freshwater ecoregion to explore the extent to which the current taxonomy conceals the ichthyofaunal diversity in the region. The General Mixed Yule Coalescent (GMYC) species delineation method identified 14 clusters within five currently recognised 'species' from the EZH ecoregion. Only one of these clusters represents a named species, while 13 of them represent candidate or undescribed species. Our results revealed that effective conservation of this region's unique biota is limited by the incomplete knowledge of taxonomic diversity and inaccurate mapping of species distribution ranges.

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Section: Data Analysesmentioning

confidence: 99%

Evidence of hidden diversity and taxonomic conflicts in five stream fishes from the Eastern Zimbabwe Highlands freshwater ecoregion

Chakona¹,

Kadye²,

Bere³

et al. 2020

Preprint

View full text Add to dashboard Cite

show abstract

“…Both approaches have been widely applied in a number of studies to reveal hidden diversity within morphologically defined species and also for delimitation of candidate species in taxonomic groups that have been poorly studied morphologically (e.g., Chakona et al, 2018;Crivellaro et al, 2017;Kordbacheh et al, 2017;Ottoni et al, 2019). The ultrametric tree for GMYC analysis was estimated in BEAST, and the same tree was used as input tree for the bPTP analysis.…”

Section: Species Delimitation Methodsmentioning

confidence: 99%

“…In contrast, for the bPTP approach, these limits are defined by the number of nucleotide substitutions between haplotypes, not requiring an ultrametric tree. Both approaches have been widely applied in a number of studies to reveal hidden diversity within morphologically defined species and also for delimitation of candidate species in taxonomic groups that have been poorly studied morphologically ( e.g ., Chakona et al ., 2018; Crivellaro et al ., 2017; Kordbacheh et al ., 2017; Ottoni et al ., 2019). Following both methods, the original Nannocharax data set consisting of 35 sequences was reduced to include only unique haplotypes, resulting in 29 sequences.…”

Section: Methodsmentioning

confidence: 99%

Integrative taxonomy reveals hidden diversity in the southern African darters genus Nannocharax Günther 1867 (Characiformes: Distichodontidae)

Bragança

Smith

Vreven

et al. 2020

Journal of Fish Biology

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The present study explored the diversity of Nannocharax within southern Africa by implementing three species delimitation methods for a data set consisting of 37 mitochondrial cytochrome oxidase subunit I sequences. Two unilocus coalescent methods, the General Mixed Yule Coalescent (GMYC) and the Bayesian implementation of the Poisson Tree Processes (bPTP), and a genetic distance method, the Automatic Barcode Gap Discovery (ABGD), were applied. Both GMYC and bPTP delimited the same operational taxonomic units (OTUs), revealing a higher diversity for the genus in the region than previously recognised, whereas the ABGD failed to delimit the same candidate species. All methods delimited two species groups, and these are supported based on colouration patterning and morphology; the Nannocharax multifasciatus and the Nannocharax macropterus species groups and the delimited OTUs were assigned to each. Two putative new species were identified, Nannocharax cf. lineostriatus "Okavango" from the Okavango River in Angola and N. cf. lineostriatus "Kwanza" from the Kwanza River system in Angola. The distribution of Nannocharax dageti was confirmed for the Upper Zambezi and extended to the Okavango system, and an identification key for the southern Africa Nannocharax species is provided.

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“…The GMYC is a robust method that models branching thresholds for intraspecific (coalescent) and interspecific (speciation/diversification) patterns (Fujisawa and Barraclough 2013). This approach has been widely applied in a number of studies to identify cryptic diversity within morphologically defined species (e.g., Crivellaro et al 2017; Grabowski et al 2017; Kordbacheh et al 2017). The ultrametric trees for GMYC analyses were estimated in BEAST (Drummond and Rambaut 2007) using two priors (Yule model and Coalescent model with constant population size) and two rates of molecular evolution (constant and relaxed clock).…”

Section: Methodsmentioning

confidence: 99%

Evidence of hidden diversity and taxonomic conflicts in five stream fishes from the Eastern Zimbabwe Highlands freshwater ecoregion

Chakona¹,

Kadye²,

Bere³

et al. 2018

View full text Add to dashboard Cite

Stream fishes of the Eastern Afromontane region are among the least studied vertebrates in this region, despite the potential for harbouring cryptic diversity. The present study examined mitochondrial cytochrome oxidase subunit I (COI) sequence divergence in 153 specimens of stream fishes belonging to four genera and three families, [(Amphilius and Zaireichthys (Amphiliidae); Chiloglanis (Mochokidae); and Hippopotamyrus (Mormyridae)], in the Eastern Zimbabwe Highlands (EZH) freshwater ecoregion to explore the extent to which the current taxonomy conceals the ichthyofaunal diversity in the region. The General Mixed Yule Coalescent (GMYC) species delineation method identified 14 clusters within five currently recognised ‘species’ from the EZH ecoregion. Only one of these clusters represents a named species, while 13 of them represent candidate or undescribed species. Our results revealed that effective conservation of this region’s unique biota is limited by the incomplete knowledge of taxonomic diversity and inaccurate mapping of species distribution ranges.

show abstract

Looks can be deceiving: species delimitation reveals hidden diversity in the freshwater crab Aegla longirostri (Decapoda: Anomura)

Cited by 19 publications

References 75 publications

Evidence of hidden diversity and taxonomic conflicts in five stream fishes from the Eastern Zimbabwe Highlands freshwater ecoregion

Evidence of hidden diversity and taxonomic conflicts in five stream fishes from the Eastern Zimbabwe Highlands freshwater ecoregion

Integrative taxonomy reveals hidden diversity in the southern African darters genus Nannocharax Günther 1867 (Characiformes: Distichodontidae)

Evidence of hidden diversity and taxonomic conflicts in five stream fishes from the Eastern Zimbabwe Highlands freshwater ecoregion

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