Genome evolution in a Mediterranean species complex: phylogeny and cytogenetics of<i>Helictotrichon</i>(Poaceae) allopolyploids based on nuclear DNA sequences (rDNA, topoisomerase gene) and FISH

Wölk, Alexandra; Winterfeld, Grit; Röser, Martin

doi:10.1080/14772000.2015.1023867

Cited by 18 publications

(25 citation statements)

References 75 publications

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“…Study of low-copy nuclear genes is also needed, as these are biparentally and independently inherited and can be used to characterize reticulation within lineages. Low-copy nuclear genes have been explored in taxa of Poeae chloroplast group 1 in a few studies (Essi et al 2008, Winterfeld et al 2012, Wölk and Röser 2014, 2017, Hochbach et al 2015, Minaya et al 2015, Wölk et al 2015). …”

Section: Discussionmentioning

confidence: 99%

Molecular phylogenetics of cool-season grasses in the subtribes Agrostidinae, Anthoxanthinae, Aveninae, Brizinae, Calothecinae, Koeleriinae and Phalaridinae (Poaceae, Pooideae, Poeae, Poeae chloroplast group 1)

Saarela¹,

Bull²,

Paradis³

et al. 2017

138

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Circumscriptions of and relationships among many genera and suprageneric taxa of the diverse grass tribe Poeae remain controversial. In an attempt to clarify these, we conducted phylogenetic analyses of >2400 new DNA sequences from two nuclear ribosomal regions (ITS, including internal transcribed spacers 1 and 2 and the 5.8S gene, and the 3’-end of the external transcribed spacer (ETS)) and five plastid regions (matK, trnL–trnF, atpF–atpH, psbK–psbI, psbA–rps19–trnH), and of more than 1000 new and previously published ITS sequences, focused particularly on Poeae chloroplast group 1 and including broad and increased species sampling compared to previous studies. Deep branches in the combined plastid and combined ITS+ETS trees are generally well resolved, the trees are congruent in most aspects, branch support across the trees is stronger than in trees based on only ITS and fewer plastid regions, and there is evidence of conflict between data partitions in some taxa. In plastid trees, a strongly supported clade corresponds to Poeae chloroplast group 1 and includes Agrostidinae p.p., Anthoxanthinae, Aveninae s.str., Brizinae, Koeleriinae (sometimes included in Aveninae s.l.), Phalaridinae and Torreyochloinae. In the ITS+ETS tree, a supported clade includes these same tribes as well as Sesleriinae and Scolochloinae. Aveninae s.str. and Sesleriinae are sister taxa and form a clade with Koeleriinae in the ITS+ETS tree whereas Aveninae s.str. and Koeleriinae form a clade and Sesleriinae is part of Poeae chloroplast group 2 in the plastid tree. All species of Trisetum are part of Koeleriinae, but the genus is polyphyletic. Koeleriinae is divided into two major subclades: one comprises Avellinia, Gaudinia, Koeleria, Rostraria, Trisetaria and Trisetum subg. Trisetum, and the other Calamagrostis/Deyeuxia p.p. (multiple species from Mexico to South America), Peyritschia, Leptophyllochloa, Sphenopholis, Trisetopsis and Trisetum subg. Deschampsioidea. Graphephorum, Trisetum cernuum, T. irazuense and T. macbridei fall in different clades of Koeleriinae in plastid vs. nuclear ribosomal trees, and are likely of hybrid origin. ITS and matK trees identify a third lineage of Koeleriinae corresponding to Trisetum subsect. Sibirica, and affinities of Lagurus ovatus with respect to Aveninae s.str. and Koeleriinae are incongruent in nuclear ribosomal and plastid trees, supporting recognition of Lagurus in its own subtribe. A large clade comprises taxa of Agrostidinae, Brizinae and Calothecinae, but neither Agrostidinae nor Calothecinae are monophyletic as currently circumscribed and affinities of Brizinae differ in plastid and nuclear ribosomal trees. Within this clade, one newly identified lineage comprises Calamagrostis coarctata, Dichelachne, Echinopogon (Agrostidinae p.p.) and Relchela (Calothecinae p.p.), and another comprises Chascolytrum (Calothecinae p.p.) and Deyeuxia effusa (Agrostidinae p.p.). Within Agrostidinae p.p., the type species of Deyeuxia and Calamagrostis s.str. are closely related, supporting classification of Dey...

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Section: Discussionmentioning

confidence: 99%

Molecular phylogenetics of cool-season grasses in the subtribes Agrostidinae, Anthoxanthinae, Aveninae, Brizinae, Calothecinae, Koeleriinae and Phalaridinae (Poaceae, Pooideae, Poeae, Poeae chloroplast group 1)

Saarela¹,

Bull²,

Paradis³

et al. 2017

138

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“…The phylogenetic analysis of the Topo6 region additionally revealed three different lineages, called SAR, SET and PAR, that represent the major genome groups of Helictotrichon (Wölk & al., 2015). The Southeast Asian Helictotrichon abietetorum, H. hideoi and H. leianthum are part of the PAR lineage of Helictotrichon supporting the close relationship of these three species with H. decorum as found in the matK-psbA tree.…”

Section: Psathyrostachys Hyalanthamentioning

confidence: 99%

“…), Helictochloa Romero Zarco, Tricholemma and the African oat genus Trisetopsis Röser & A.Wölk (Romero Zarco, 2011;Röser & al., 2009;Wölk & Röser, 2013. Helictotrichon in the rather narrow sense of most current taxonomic treatments therefore encompasses only species of the Northern Hemisphere and the former genus Pseudarrhenatherum Rouy (Röser & al., 2009;Wölk & Röser, 2014;Wölk & al., 2015).…”

Section: Introductionmentioning

confidence: 99%

“…While the temperate Eurasian and North African species of Helictotrichon have been comparatively well studied (Romero Zarco, 1984;Röser, 1989Röser, , 1996Röser, , 1997Lange, 1995;Grebenstein & al., 1996Grebenstein & al., , 1998Röser & al., 2001;Winterfeld, 2006;Winterfeld & Röser, 2007a, b;Döring & al., 2007;Döring, 2009;Winterfeld & al., 2009a;Wölk & al., 2015), investigations of the approximately 15 South and Southeast Asian species distributed in Pakistan, India, China, Bhutan, Nepal, Ceylon, Farther India, the Malay Archipelago, Taiwan and Japan are largely lacking. These species have been treated mainly in identification keys and the floristic literature (Hooker, 1896;Bor, 1951Bor, , 1960Bor, , 1970Ohwi, 1965;Monod de Froideville, 1968;Tzvelev, 1968;Cope, 1982;Davidse, 1994;Moulik, 1997;Broome & Noltie, 2000;Wu & Phillips, 2006).…”

Section: Introductionmentioning

confidence: 99%

“…The results of previous karyological studies revealed the presence of polyploid complexes in the Southeast Asian oat-like species (Tateoka, 1954;Mehra & Sharma, 1977;Parkash, 1979;Sharma & Sharma, 1979). Polyploidy and a certain degree of hybridization are common and well-documented in several European, especially Mediterranean, species of Helictotrichon (Röser, 1989;Winterfeld, 2006;Winterfeld & al., 2009a;Wölk & al., 2015). Polyploid formation is a generally frequent phenomenon in the evolution of grasses (Stebbins, 1956;Johnson, 1972;Gottschalk, 1976;Levy & Feldmann, 2002) and played a significant role also in well-studied grass crops like wheat (Triticum aestivum L.), maize (Zea mays L.) and rice (Oryza sativa L.) with a history of polyploidization.…”

Section: Introductionmentioning

confidence: 99%

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Hybridization and long‐distance colonization in oat‐like grasses of South and East Asia, including an amended circumscription of Helictotrichon and the description of the new genus Tzveleviochloa (Poaceae)

Wölk

Röser

2012

TAXON

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The phylogenetic relationships of 31 genera of the traditional grass tribe Aveneae, with focus on Southeast Asian species of Helictotrichon, were examined using DNA sequences of the plastid matK-psbA region, nuclear ITS, the nuclear single-copy gene topoisomerase 6 (Topo6) spanning two introns and morphology. A molecular phylogenetic analysis was performed for 121 species applying maximum parsimony and Bayesian methods. Additionally we surveyed 11 Southeast Asian taxa for structural spikelet characters including lemmas, lodicules and ovaries. The phylogenetic results of the three molecular markers revealed that several Southeast Asian species traditionally accommodated in Helictotrichon are misplaced in this genus except for H. abietetorum, H. hideoi and H. leianthum. The placement of H. polyneurum and H. sumatrense in the genus Helictotrichon requires further investigation as suggested by morphological and preliminary molecular data. Due to the occurrence of different sequence types of ITS and Topo6, both nuclear DNA markers suggested an allopolyploid origin for several Southeast Asian taxa. (1) In Helictotrichon parviflorum and H. potaninii two different sequence types of Topo6 occur, closely similar to those of Trisetum and Helictotrichon, respectively. Nuclear ITS data of both species point to affinities with Trisetum and related genera but not to Helictotrichon. Both species belong to a hitherto unknown genus that is morphologically distinct from Trisetum and Helictotrichon and is named Tzveleviochloa. (2) Two copy types (A and B) of Topo6 previously identified in African Trisetopsis, a genus encompassing predominantly sub-Saharan species that traditionally had been ascribed to Helictotrichon, also occur in two Southeast Asian species, i.e., H. junghuhnii and H. virescens. In agreement with morphological data both species need to be transferred to Trisetopsis. This expands the hitherto known eastern edge of the range of Trisetopsis from the Arabian Peninsula to China. (3) Additionally, the Chinese H. altius has a copy type sequence of Topo6 similar to that of Trisetopsis but not of Helictotrichon in its genome, whereas its plastid DNA fits Helictotrichon and relatives. Along with morphological characters this supports intermediacy between Trisetopsis and Helictotrichon. Therefore H. altius is probably an intergeneric hybrid, here named ×Trisetopsotrichon altius. The taxonomically difficult genus Helictotrichon s.l. in tropical to temperate southeastern Asia becomes disassembled into Helictotrichon s.str., the new genus Tzveleviochloa, gen. nov., and the nothogenus ×Trisetopsotrichon, nothogen. nov. The following combinations are introduced: Trisetopsis aspera, comb. nov., T. junghuhnii, comb. nov., T. virescens, comb. nov., ×Trisetopsotrichon altius, comb. nov., Tzveleviochloa burmanica, comb. nov., T. parviflora, comb. nov., T. potaninii, comb. nov. Supplementary Material DNA sequence alignments are available in the Supplementary Data section of the online version of this article at

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Phylogenetic lineages and the role of hybridization as driving force of evolution in grass supertribe Poodae

Tkach

Schneider

Döring

et al. 2020

TAXON

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To investigate the evolutionary diversification and morphological evolution of grass supertribe Poodae (subfam. Pooideae, Poaceae) we conducted a comprehensive molecular phylogenetic analysis including representatives from most of its accepted genera. We focused on generating a DNA sequence dataset of plastid matK gene-3′trnK exon and trnL-trnF regions and nuclear ribosomal (nr) ITS1-5.8S gene-ITS2 and ETS that was taxonomically overlapping as completely as possible (altogether 257 species). The idea was to infer whether phylogenetic trees or certain clades based on plastid and nrDNA data correspond with each other or discord, revealing signatures of past hybridization. The datasets were analysed separately, in combination, by excluding taxa with discordant placements in the individual gene trees and with duplication of these taxa in a way that each duplicate has only one data partition (plastid or nrDNA). We used maximum likelihood, maximum parsimony and Bayesian approaches. Instances of severe conflicts between the phylogenetic trees derived from both datasets, some of which have been noted earlier, point to hybrid origin of several lineages such as the ABCV clade encompassing several subtribes and subordinate clades,

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Genome evolution in a Mediterranean species complex: phylogeny and cytogenetics ofHelictotrichon(Poaceae) allopolyploids based on nuclear DNA sequences (rDNA, topoisomerase gene) and FISH

Cited by 18 publications

References 75 publications

Molecular phylogenetics of cool-season grasses in the subtribes Agrostidinae, Anthoxanthinae, Aveninae, Brizinae, Calothecinae, Koeleriinae and Phalaridinae (Poaceae, Pooideae, Poeae, Poeae chloroplast group 1)

Molecular phylogenetics of cool-season grasses in the subtribes Agrostidinae, Anthoxanthinae, Aveninae, Brizinae, Calothecinae, Koeleriinae and Phalaridinae (Poaceae, Pooideae, Poeae, Poeae chloroplast group 1)

Hybridization and long‐distance colonization in oat‐like grasses of South and East Asia, including an amended circumscription of Helictotrichon and the description of the new genus Tzveleviochloa (Poaceae)

Phylogenetic lineages and the role of hybridization as driving force of evolution in grass supertribe Poodae

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