Dataset Information

Allium formosum Sennikov & Lazkov (Amaryllidaceae), a new species from Kyrgyzstan.

ABSTRACT: Allium formosum Sennikov & Lazkov sp. nov. is described as new to science and illustrated. This species is the second member of Allium sect. Spathulata F.O.Khass. & R.M.Fritsch, being different from Allium spathulatum F.O.Khass. & R.M.Fritsch in larger, broader, obtuse and more intensely purple-coloured tepals, and in a more robust habit. It is a local endemic of Babash-Ata Mt. Range situated east of Fergana Valley in Kyrgyzstan, recommended for legal protection as Endangered because of the very small population size in its only locality.

SUBMITTER: Sennikov AN

PROVIDER: S-EPMC3689117 | biostudies-literature | 2013

REPOSITORIES: biostudies-literature

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Allium formosum Sennikov & Lazkov (Amaryllidaceae), a new species from Kyrgyzstan.

Sennikov Alexander N AN Lazkov Georgy A GA

PhytoKeys 20130402 21

Allium formosum Sennikov & Lazkov sp. nov. is described as new to science and illustrated. This species is the second member of Allium sect. Spathulata F.O.Khass. & R.M.Fritsch, being different from Allium spathulatum F.O.Khass. & R.M.Fritsch in larger, broader, obtuse and more intensely purple-coloured tepals, and in a more robust habit. It is a local endemic of Babash-Ata Mt. Range situated east of Fergana Valley in Kyrgyzstan, recommended for legal protection as Endangered because of the very ...[more]

PMID: 23794934

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Project description:The genus Allium (Amaryllidaceae, Allioideae) is one of the largest monocotyledonous genera and it includes many economically important crops that are cultivated for consumption or medicinal uses. Recent advances in molecular phylogenetics have revolutionized our understanding of Allium taxonomy and evolution. However, the phylogenetic relationships in some Allium sections (such as the Allium section Daghestanica) and the genetic bases of adaptative evolution, remain poorly understood. Here, we newly assembled six chloroplast genomes from Chinese endemic species in Allium section Daghestanica and by combining these genomes with another 35 allied species, we performed a series of analyses including genome structure, GC content, species pairwise Ka/Ks ratios, and the SSR component, nucleotide diversity and codon usage. Positively selected genes (PSGs) were detected in the Allium lineage using the branch-site model. Comparison analysis of Bayesian and ML phylogeny on CCG (complete chloroplast genome), SCG (single copy genes) and CDS (coding DNA sequences) produced a well-resolved phylogeny of Allioideae plastid lineages, which illustrated several novel relationships with the section Daghestanica. In addition, six species in section Daghestanica showed highly conserved structures. The GC content and the GC3s content in Allioideae species exhibited lower values than studied non-Allioideae species, along with elevated pairwise Ka/Ks ratios. The rps2 gene was lost in all examined Allioideae species, and 10 genes with significant posterior probabilities for codon sites were identified in the positive selection analysis, seven of them are associated with photosynthesis. Our study uncovered a new species relationship in section Daghestanica and suggested that the selective pressure has played an important role in Allium adaptation and evolution, these results will facilitate our further understanding of evolution and adaptation of species in the genus Allium.

Project description:Polyploidization is a process that typically leads to instantaneous reproductive isolation and has, therefore, been considered as one of the major evolutionary forces in the species-rich Hengduan Mountains (HM), yet this topic remains poorly studied in the region. Allium sikkimense and its relatives (about eight species) compose a natural diploid-polyploid complex with the highest diversity in the HM and adjacent areas. A combination of nuclear ribosomal DNA (nrDNA), plastome, transcriptome, and ploidy identification through chromosome counting and flow cytometry is employed to reconstruct the phylogenetic relationships in this complex and to investigate the frequency and the evolutionary significance of polyploidy in the complex. The plastome failed to resolve the phylogenetic relationships of the different species in the A. sikkimense complex, and the phylogenetic tree based on nrDNA also has limited resolution. However, our study reveals a well-resolved phylogenetic framework for species in the A. sikkimense complex using more than 1,000 orthologous genes from the transcriptome data. Previously recognized morphospecies A. sikkimense are non-monophyletic and comprise at least two independently evolved lineages (i.e., cryptic species), each forming a clade with different diploid species in this complex. The embedded pattern of octoploid A. jichouense and tetraploid A. sp. nov. within different polyploid samples of A. sikkimense supports a possible scenario of budding speciation (via niche divergence). Furthermore, our results reveal that co-occurring species in the A. sikkimense complex usually have different ploidy levels, suggesting that polyploidy is an important process for reproductive isolation of sympatric Allium species. Phylogenetic network analyses suggested that the phylogenetic relationships of the A. sikkimense complex, allowing for reticulation events, always fit the dataset better than a simple bifurcating tree. In addition, the included or exserted filaments, which have long been used to delimit species, are highly unreliable taxonomically due to their extensive parallel and convergent evolution.

Dataset Information

Allium formosum Sennikov & Lazkov (Amaryllidaceae), a new species from Kyrgyzstan.

Publications

Allium formosum Sennikov & Lazkov (Amaryllidaceae), a new species from Kyrgyzstan.

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