Chloroplastic and nuclear diversity of wild beets at a large geographical scale: Insights into the evolutionary history of the <i>Beta</i> section

Touzet, Pascal; Villain, Sarah; Buret, Laetitia; Martin, Hélène; Holl, Anne-Catherine; Poux, Céline; Cuguen, Joël

doi:10.1002/ece3.3774

Cited by 9 publications

(20 citation statements)

References 57 publications

(74 reference statements)

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“…maritima , which may explain the lower bootstrap support and the more unclear relations in the phylogenetic tree presented here. Although previous studies found low divergence between B. vulgaris subspecies (10), B. vulgaris subsp. adanensis seems to be clearly separated from the other subspecies in our analysis, possibly explained by the geographical distance to the other investigated samples.…”

Section: Discussionmentioning

confidence: 73%

“…maritima, B. vulgaris subsp. adanensis , and B. macrocarpa are not shown as these species occur along the whole coastline of Western Eurasia (1,9,10,49).…”

Section: Resultsmentioning

confidence: 99%

“…maritima, B. macrocarpa and B. vulgaris subsp. adanensis accessions based on a 3,742 bp alignment of plastome sequences and a 1,715 bp alignment of selected nuclear sequences (10). They find, based on a representative geographical sampling, that B. macrocarpa is a distinct lineage from the two investigated B. vulgaris subspecies.…”

Section: Discussionmentioning

confidence: 99%

“…maritima accessions are even phenotypically highly similar (41). The phylogenetic relationships among species can also be influenced by the geographical distribution, mating systems and polyploidization (10). Allogamy and self-incompatibility are characteristics of B. vulgaris subsp.…”

Section: Implications For the Systematic Placements Within The Betoideae Subfamilymentioning

confidence: 99%

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Complete pan-plastome sequences enable high resolution phylogenetic classification of sugar beet and closely related crop wild relatives

Sielemann

Pucker

Schmidt

et al. 2021

Preprint

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As the major source of sugar in moderate climates, sugar-producing beets (Beta vulgaris subsp. vulgaris) have a high economic value. However, the low genetic diversity within cultivated beets requires introduction of new traits, for example to increase their tolerance and resistance attributes - traits that often reside in the crop wild relatives. For this, genetic information of wild beet relatives and their phylogenetic placements to each other are crucial. To answer this need, we sequenced and assembled the complete plastome sequences from a broad species spectrum across the beet genera Beta and Patellifolia, both embedded in the Betoideae (order Caryophyllales). This pan-plastome dataset was then used to determine the wild beet phylogeny in high-resolution. We sequenced the plastomes of 18 closely related accessions representing 11 species of the Betoideae subfamily and provide high-quality plastome assemblies which represent an important resource for further studies of beet wild relatives and the diverse plant order Caryophyllales. Their assembly sizes range from 149,723 bp (Beta vulgaris subsp. vulgaris) to 152,816 bp (Beta nana), with most variability in the intergenic sequences. Combining plastome-derived phylogenies with read-based treatments based on mitochondrial information, we were able to suggest a unified and highly confident phylogenetic placement of the investigated Betoideae species. Our results show that the genus Beta can be divided into the two clearly separated sections Beta and Corollinae. Our analysis confirms the affiliation of B. nana with the other Corollinae species, and we argue against a separate placement in the Nanae section. Within the Patellifolia genus, the two diploid species Patellifolia procumbens and Patellifolia webbiana are, regarding the plastome sequences, genetically more similar to each other than to the tetraploid Patellifolia patellaris. Nevertheless, all three Patellifolia species are clearly separated. In conclusion, our wild beet plastome assemblies represent a new resource to understand the molecular base of the beet germplasm. Despite large differences on the phenotypic level, our pan-plastome dataset is highly conserved. For the first time in beets, our whole plastome sequences overcome the low sequence variation in individual genes and provide the molecular backbone for highly resolved beet phylogenomics. Hence, our plastome sequencing strategy can also guide genomic approaches to unravel other closely related taxa.

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Section: Discussionmentioning

confidence: 73%

“…maritima, B. vulgaris subsp. adanensis , and B. macrocarpa are not shown as these species occur along the whole coastline of Western Eurasia (1,9,10,49).…”

Section: Resultsmentioning

confidence: 99%

Section: Discussionmentioning

confidence: 99%

Section: Implications For the Systematic Placements Within The Betoideae Subfamilymentioning

confidence: 99%

See 2 more Smart Citations

Complete pan-plastome sequences enable high resolution phylogenetic classification of sugar beet and closely related crop wild relatives

Sielemann

Pucker

Schmidt

et al. 2021

Preprint

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“…Studies on wild beets addressed their genetic diversity (Andrello et al ., ), as well as their phylogeny and geographic distribution (Richards et al ., ; Andrello et al ., ; Romeiras et al ., ; Touzet et al ., ). These studies used molecular information and generated large‐scale marker sets of several wild beet (sub‐)species.…”

Section: Introductionmentioning

confidence: 97%

Genomes of the wild beets Beta patula and Beta vulgaris ssp. maritima

et al. 2019

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We present draft genome assemblies of Beta patula, a critically endangered wild beet endemic to the Madeira archipelago, and of the closely related Beta vulgaris ssp. maritima (sea beet). Evidence-based reference gene sets for B. patula and sea beet were generated, consisting of 25 127 and 27 662 genes, respectively. The genomes and gene sets of the two wild beets were compared with their cultivated sister taxon B. vulgaris ssp. vulgaris (sugar beet). Large syntenic regions were identified, and a display tool for automatic genome-wide synteny image generation was developed. Phylogenetic analysis based on 9861 genes showing 1:1:1 orthology supported the close relationship of B. patula to sea beet and sugar beet. A comparative analysis of the Rz2 locus, responsible for rhizomania resistance, suggested that the sequenced B. patula accession was rhizomania susceptible. Reference karyotypes for the two wild beets were established, and genomic rearrangements were detected. We consider our data as highly valuable and comprehensive resources for wild beet studies, B. patula conservation management, and sugar beet breeding research.Proteins of < 10 aa were removed. The average length of genes that had at least one transcript showing 1-100% mRNA-seq evidence was 5695.4 bp (B. patula) and 5457.3 bp (B.v. maritima), respectively. aa, amino acids; avg., average; bp, base pairs; evid., evidence; tr., transcripts.

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