Hybridization and polyploidization within the Chenopodium album aggregate analysed by means of cytological and molecular markers

Mandák, Bohumil; Krak, Karol; Vít, Petr; Lomonosova, Maria N.; Belyayev, Alexander; Habibi, Farzaneh; Wang, Lei; Douda, Jan; Štorchová, Helena

doi:10.1016/j.ympev.2018.08.016

Cited by 41 publications

(75 citation statements)

References 59 publications

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“…The DNA extraction, PCR and sequencing followed the methods of Mandák et al. (). Sequences were deposited in GenBank under the accession numbers –, –, –.…”

Section: Methodsmentioning

confidence: 99%

“…The group is also extremely variable morphologically and possesses a high level of phenotypic plasticity (Habibi, Vít, Rahiminejad, & Mandák, ). This results in a confusing taxonomy, especially in the case of the polyploid species (Mandák et al., ), that is hard to apply to the fossilised seeds collected and analysed by archaeologists. In this case, molecular analysis of extant Chenopodium populations could provide information on their past spreading, their centres of genetic diversity and, ultimately, the areas where these species originated.…”

Section: Introductionmentioning

confidence: 99%

“…The origins of the majority of the Eurasian C. album aggregate taxa have been uncovered only recently (Mandák et al., ). These authors delimited eight major monophyletic evolutionary lineages represented by extant or extinct (or unknown) diploid taxa representing individual subgenomes.…”

Section: Introductionmentioning

confidence: 99%

“…They show that hybridisation between these has played important roles in the aggregate's evolutionary history. Polyploid taxa with distinct subgenome combinations have undergone further diversifications that have occurred relatively recently and over intervals no longer than the Quaternary period (Mandák et al., ). Moreover, Mandák et al.…”

Section: Introductionmentioning

confidence: 99%

“…Moreover, Mandák et al. () analysed variations in cpDNA and recognised eight main haplotype groups reflecting the above‐mentioned subgenomes. These they designated clades “A–H”.…”

Section: Introductionmentioning

confidence: 99%

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Human‐mediated dispersal of weed species during the Holocene: A case study of Chenopodium album agg.

Krak

Habibi

Douda

et al. 2019

Journal of Biogeography

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Aim We hypothesised that during the Holocene, the distributions of species such as crop weeds have been significantly influenced by human activity. We aimed to (a) identify the main centres of diversity of the Chenopodium album agg. species and (b) test if these species colonised Europe from western Asia, most likely due to the westward expansion of agriculture in the Neolithic period. Location Eurasia. Taxon Chenopodium album aggregate (Amaranthaceae). Methods Three cpDNA regions were sequenced in 904 individuals, from 26 species of the C. album aggregate. A dated phylogeny was inferred and this was used to establish relationships among the haplotypes and to estimate their divergence times. The group's main centres of diversity were inferred by comparing species and haplotype richness between Europe, the Mediterranean, western Asia, central Asia and Siberia. Results The most haplotype‐diverse area for the entire C. album aggregate is central Asia. Interestingly, Europe is poor in terms of haplotype diversity, showing the same level of diversity as the western Asian region. The pairwise genetic differentiation between Europe, the Mediterranean and western Asia is lower than between any of these regions and either central Asia or Siberia. This points to the origin of the European Chenopodium species pool as being in western Asia. In some phylogenetically‐defined clades, species could not be distinguished based on cpDNA haplotypes due to a high level of haplotype sharing. However, in others, the haplotype variation follows the species boundaries. Main conclusions Using the C. album agg. species as a model, we show the importance of central Asia as one of the main centres of diversity for weedy species. However, the group's colonisation of Europe had its origins in western Asia, highlighting the importance of human‐mediated dispersal of ruderal and weed plant species accompanying the westward spread of agriculture in the Neolithic period.

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“…The DNA extraction, PCR and sequencing followed the methods of Mandák et al. (). Sequences were deposited in GenBank under the accession numbers –, –, –.…”

Section: Methodsmentioning

confidence: 99%

Section: Introductionmentioning

confidence: 99%

Section: Introductionmentioning

confidence: 99%

Section: Introductionmentioning

confidence: 99%

“…Moreover, Mandák et al. () analysed variations in cpDNA and recognised eight main haplotype groups reflecting the above‐mentioned subgenomes. These they designated clades “A–H”.…”

Section: Introductionmentioning

confidence: 99%

See 3 more Smart Citations

Human‐mediated dispersal of weed species during the Holocene: A case study of Chenopodium album agg.

Krak

Habibi

Douda

et al. 2019

Journal of Biogeography

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Diversification and independent polyploid origins in the disjunct species Alyssum repens from the Southeastern Alps and the Carpathians

Melichárková

Španiel

Marhold

et al. 2019

American J of Botany

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Premise Disjunct distributions have been commonly observed in mountain plant species and have stimulated phylogeographic and phylogenetic research. Here we studied Alyssum repens, a member of the polyploid species complex A. montanum−A. repens, which exhibits SE Alpine‐Carpathian disjunctions with a large elevational span and consists of diploid and tetraploid populations. We aimed to investigate the species‘ genetic and cytotype structure in the context of its distribution patterns, to elucidate the polyploid origins and to propose an appropriate taxonomic treatment. Methods We combined AFLP fingerprinting markers, sequence variation of the highly repetitive ITS region of rDNA and the low‐copy DET1 nuclear gene, genome size, and morphometric data. Results We identified four geographically structured genetic lineages. One consisted of diploid populations from the foothills of the Southeastern Alps and neighboring regions, and the three others were allopatric montane to alpine groups comprising diploids and tetraploids growing in the Southeastern Carpathians and the Apuseni Mts. in Romania. Conclusions We inferred a vicariance scenario associated with Quaternary climatic oscillations, accompanied by one auto‐ and two allopolyploidization events most likely involving a northern Balkan relative. Whereas genetic differentiation and allopatric distribution would favor the taxonomic splitting of this species, the genetic lineages largely lack morphological distinguishability, and their ecological, cytotype and genome size divergence is only partial. Even though we probably face here a case of incipient speciation, we propose to maintain the current taxonomic treatment of Alyssum repens as a single, albeit variable, species.

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A chromosome‐scale reference of Chenopodium watsonii helps elucidate relationships within the North American A‐genome Chenopodium species and with quinoa

Young,

Maughan,

Jarvis

et al. 2023

The Plant Genome

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Quinoa (Chenopodium quinoa), an Andean pseudocereal, attained global popularity beginning in the early 2000s due to its protein quality, glycemic index, and high fiber, vitamin, and mineral contents. Pitseed goosefoot (Chenopodium berlandieri), quinoa's North American free‐living sister species, grows on disturbed and sandy substrates across the North America, including saline coastal sands, southwestern deserts, subtropical highlands, the Great Plains, and boreal forests. Together with South American avian goosefoot (Chenopodium hircinum) they comprise the American tetraploid goosefoot complex (ATGC). Superimposed on pitseed goosefoot's North American range are approximately 35 AA diploids, most of which are adapted to a diversity of niche environments. We chose to assemble a reference genome for Sonoran A‐genome Chenopodium watsonii due to fruit morphological and high (>99.3%) preliminary sequence‐match similarities with quinoa, along with its well‐established taxonomic status. The genome was assembled into 1377 scaffolds spanning 547.76 Mb (N50 = 55.14 Mb, L50 = 5), with 94% comprised in nine chromosome‐scale scaffolds and 93.9% Benchmarking Universal Single‐Copy Orthologs genes identified as single copy and 3.4% as duplicated. A high degree of synteny, with minor and mostly telomeric rearrangements, was found when comparing this taxon with the previously reported genome of South American C. pallidicaule and the A‐subgenome chromosomes of C. quinoa. Phylogenetic analysis was performed using 10,588 single‐nucleotide polymorphisms generated by resequencing a panel of 41 New World AA diploid accessions and the Eurasian H‐genome diploid Chenopodium vulvaria, along with three AABB tetraploids previously sequenced. Phylogenetic analysis of these 32 taxa positioned the psammophyte Chenopodium subglabrum on the branch containing A‐genome sequences from the ATGC. We also present evidence for long‐range dispersal of Chenopodium diploids between North and South America.

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Hybridization and polyploidization within the Chenopodium album aggregate analysed by means of cytological and molecular markers

Cited by 41 publications

References 59 publications

Human‐mediated dispersal of weed species during the Holocene: A case study of Chenopodium album agg.

Human‐mediated dispersal of weed species during the Holocene: A case study of Chenopodium album agg.

Diversification and independent polyploid origins in the disjunct species Alyssum repens from the Southeastern Alps and the Carpathians

A chromosome‐scale reference of Chenopodium watsonii helps elucidate relationships within the North American A‐genome Chenopodium species and with quinoa

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