scholarly journals Phylogenetic and phylogeographic patterns of Didymosphenia geminata on invaded sites in Chile

2018 ◽  
Author(s):  
Bernardita Cayupe ◽  
Nicole Ehrenfeld ◽  
Rodrigo Moreno ◽  
Fabio A. Labra ◽  
Carolina Díaz
Keyword(s):  
Haplotype Analysis ◽  
Rbcl Gene ◽  
Species Introduction ◽  
Single Population ◽  
Didymosphenia Geminata ◽  
Genetic Sampling ◽  
Alternative Hypotheses ◽  
Genetic Sequences ◽  
Rbcl Gene Sequences ◽  
Freshwater Diatom

Understanding the population dynamics of invasive processes has become a pressing concern in a highly connected world faced with ongoing climate change and increased exotic species introduction. In Chile, the invasive freshwater benthic diatom Didymosphenia geminata (Lyngbye) Schmidt has become widespread, expanding across multiple river basins spanning over 3000 km in three years. Here we evaluate the phylogenetic and phylogeographic relationships of D. geminata samples collected throughout the invaded range in Chile, using specific rbcL gene sequence previously published. Genetic sequences for this marker were generated for 19 sample sites, and were compared with available freshwater diatom sequences, as well as with previously published rbcL gene sequences for D. geminata. We find that all genetic sequences collected within Chile present phylogenetic divergences from D. geminata samples collected in Siberia, as well as from samples of the genera Gomphonema, Cymbella and Encyonema. Thus, we validate the invasion by D. geminata, in agreement with existing morphological taxonomic criteria. In addition, a haplotype analysis showed a total of 13 haplotypes, two of which (halpotypes I and IX) found in 12 and 3 populations respectively, while each of the remaining haplotypes presents a single population. Thus, these results are consistent either with the introduction of multiple lineages, or with a rapid genetic differentiation in this invading freshwater diatom. Further genetic sampling, both within Chile and in countries that may have been potential sources of the invasion are needed to test these alternative hypotheses.

scholarly journals Phylogenetic and phylogeographic patterns of Didymosphenia geminata on invaded sites in Chile

2018 ◽  
Author(s):  
Bernardita Cayupe ◽  
Nicole Ehrenfeld ◽  
Rodrigo Moreno ◽  
Fabio A. Labra ◽  
Carolina Díaz
Keyword(s):  
Haplotype Analysis ◽  
Rbcl Gene ◽  
Species Introduction ◽  
Single Population ◽  
Didymosphenia Geminata ◽  
Genetic Sampling ◽  
Alternative Hypotheses ◽  
Genetic Sequences ◽  
Rbcl Gene Sequences ◽  
Freshwater Diatom

Understanding the population dynamics of invasive processes has become a pressing concern in a highly connected world faced with ongoing climate change and increased exotic species introduction. In Chile, the invasive freshwater benthic diatom Didymosphenia geminata (Lyngbye) Schmidt has become widespread, expanding across multiple river basins spanning over 3000 km in three years. Here we evaluate the phylogenetic and phylogeographic relationships of D. geminata samples collected throughout the invaded range in Chile, using specific rbcL gene sequence previously published. Genetic sequences for this marker were generated for 19 sample sites, and were compared with available freshwater diatom sequences, as well as with previously published rbcL gene sequences for D. geminata. We find that all genetic sequences collected within Chile present phylogenetic divergences from D. geminata samples collected in Siberia, as well as from samples of the genera Gomphonema, Cymbella and Encyonema. Thus, we validate the invasion by D. geminata, in agreement with existing morphological taxonomic criteria. In addition, a haplotype analysis showed a total of 13 haplotypes, two of which (halpotypes I and IX) found in 12 and 3 populations respectively, while each of the remaining haplotypes presents a single population. Thus, these results are consistent either with the introduction of multiple lineages, or with a rapid genetic differentiation in this invading freshwater diatom. Further genetic sampling, both within Chile and in countries that may have been potential sources of the invasion are needed to test these alternative hypotheses.

scholarly journals rbcL gene sequences provide evidence for the evolutionary lineages of leptosporangiate ferns.

1994 ◽  
Vol 91 (12) ◽  
pp. 5730-5734 ◽  
Author(s):  
M. Hasebe ◽  
T. Omori ◽  
M. Nakazawa ◽  
T. Sano ◽  
M. Kato ◽  
...  
Keyword(s):  
Rbcl Gene ◽  
Gene Sequences ◽  
Evolutionary Lineages ◽  
Rbcl Gene Sequences

Molecular Systematics of the Nepetoideae (Family Labiatae): Phylogenetic Implications from rbcL Gene Sequences

1994 ◽  
Vol 49 (9-10) ◽  
pp. 635-645 ◽  
Author(s):  
Martina Kaufmann ◽  
Michael Wink
Keyword(s):  
Rbcl Gene ◽  
Character State ◽  
Specific Primers ◽  
Distance Methods ◽  
Phylogenetic Implications ◽  
Viii And Ix ◽  
Total Dna ◽  
Polymerase Chain ◽  
Rbcl Gene Sequences ◽  
Rbcl Sequences

Abstract Total DNA was extracted from 41 species (20 genera) of the subfamily Nepetoideae (family Labiatae). Using rbcL-specific primers, the rbcL gene was amplified by polymerase chain reaction (PCR) and sequenced directly. RbcL sequences were evaluated with character state (maximum parsimony; PAUP) and distance methods (neighbour-joining; MEGA). In agree­ ment with classical systematics all taxa studied cluster within the Nepetoideae and are clearly distinguished from members of the subfamily Lamioideae. A number of distinctive clades are apparent within the Nepetoideae:, and XIII -Perovskia. At least five main branches rep­ resenting the clades I, II, III to VII, VIII, and IX to XIII respectively, can be distinguished within the Nepetoideae studied. They might be considered representing the tribes (according to Cantino, 1992) Elsholtzieae (I), Lavanduleae (II), and Mentheae (III - XIII). The tribe Mentheae needs to be subdivided into at least three main groups (clades III-VII, VIII and IX -XIII). Major ana hortensis which is often classified as Origanum hortensis does not cluster with Origanum and deserves a generic status of its own.

scholarly journals DNA barcoding of arid wild plants using rbcL gene sequences

2012 ◽  
Vol 11 (3) ◽  
pp. 1934-1941 ◽  
Author(s):  
S.O. Bafeel ◽  
I.A. Arif ◽  
M.A. Bakir ◽  
A.A. Al Homaidan ◽  
A.H. Al Farhan ◽  
...  
Keyword(s):  
Dna Barcoding ◽  
Wild Plants ◽  
Rbcl Gene ◽  
Gene Sequences ◽  
Rbcl Gene Sequences

Re-examination of the morphological characteristics and rbcL gene sequences of Chara zeylanica Willdenow (Charales, Charophyceae) in Korea

2016 ◽  
Vol 134 ◽  
pp. 97-102
Author(s):  
Eun-Young Lee ◽  
Kwang Chul Choi ◽  
Sang-Rae Lee ◽  
Young Hwan Kim ◽  
Jee Eun Lee ◽  
...  
Keyword(s):  
Morphological Characteristics ◽  
Rbcl Gene ◽  
Gene Sequences ◽  
Chara Zeylanica ◽  
Rbcl Gene Sequences

scholarly journals Extensive variation in evolutionary rate of rbcL gene sequences among seed plants.

1992 ◽  
Vol 89 (16) ◽  
pp. 7844-7848 ◽  
Author(s):  
J. Bousquet ◽  
S. H. Strauss ◽  
A. H. Doerksen ◽  
R. A. Price
Keyword(s):  
Evolutionary Rate ◽  
Seed Plants ◽  
Rbcl Gene ◽  
Gene Sequences ◽  
Extensive Variation ◽  
Rbcl Gene Sequences

Molecular evidence for the systematic positions of two enigmatic mosses: Pterogonidium pulchellum (Sematophyllaceae, Musci) and Piloecium pseudorufescens (Myuriaceae, Musci)

2006 ◽  
Vol 84 (3) ◽  
pp. 501-507
Author(s):  
Ying Chang ◽  
Chan Woon Khiong ◽  
Sean W. Graham ◽  
Benito C. Tan
Keyword(s):  
Bayesian Inference ◽  
Maximum Likelihood ◽  
Maximum Parsimony ◽  
Phylogenetic Analyses ◽  
Systematic Position ◽  
Molecular Evidence ◽  
Rbcl Gene ◽  
Branch Support ◽  
New Evidence ◽  
Rbcl Gene Sequences

The systematic position of Pterogonidium pulchellum (W.J. Hooker) Muell. Hal. in the Sematophyllaceae and Piloecium pseudorufescens (Hampe) Muell. Hal. in the Myuriaceae is reexamined with new evidence derived from rbcL gene sequences. A total of 18 taxa from Sematophyllaceae, Hypnaceae, Myuriaceae, and Hookeriaceae were included, 11 of which were newly sequenced for the rbcL gene. Analyses were done using maximum parsimony, maximum likelihood (TrN + Γ + I model and GTR + Γ + I model), and Bayesian inference (GTR + Γ + I model). The results show that Pterogonidium pulchellum has a closer relationship with members of Hypnaceae than with Sematophyllaceae, while Piloecium pseudorufescens forms a clade with the Sematophyllaceae in all phylogenetic analyses, with robust branch support. Two SOWH tests were carried out and the results show that it is not appropriate to classify Pterogonidium pulchellum in Sematophyllaceae and it is also not appropriate to classify Piloecium pseudorufescens in Myuriaceae.

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