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

Río, Álvaro Rodríguez del; Minoche, André E.; Zwickl, Nikolaus F.; Friedrich, Anja; Liedtke, Susan; Schmidt, Thomas; Himmelbauer, Heinz; Dohm, Juliane C.

doi:10.1111/tpj.14413

Cited by 34 publications

(14 citation statements)

References 50 publications

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“…The protein sequences of H. ammodendron and seven other sequenced plant species, namely six Amaranthaceae species ( S. aralocaspica , B. vulgaris , Beta patula , 65 C. quinoa , S. oleracea , and A. hypochondriacus ) and one outgroup species ( A. thaliana ), were used for the phylogenetic analysis. Single-copy orthogroups among the eight species were distinguished using OrthoFinder v2.3.11 66 with the DIAMOND aligner and the Markov cluster algorithm.…”

Section: Methodsmentioning

confidence: 99%

Chromosome-level genome assembly of a xerophytic plant, Haloxylon ammodendron

et al. 2022

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Haloxylon ammodendron is a xerophytic perennial shrub or small tree that has a high ecological value in anti-desertification due to its high tolerance to drought and salt stress. Here, we report a high-quality, chromosome-level genome assembly of H. ammodendron by integrating PacBio’s high-fidelity sequencing and Hi-C technology. The assembled genome size was 685.4 Mb, of which 99.6% was assigned to nine pseudochromosomes with a contig N50 value of 23.6 Mb. Evolutionary analysis showed that both the recent substantial amplification of long terminal repeat retrotransposons (LTR-RTs) and tandem gene duplication may have contributed to its genome size expansion and arid adaptation. An ample amount of low-GC genes was closely related to functions that may contribute to the desert adaptation of H. ammodendron. Gene family clustering together with gene expression analysis identified differentially expressed genes that may play important roles in the direct response of H. ammodendron to water-deficit stress. We also identified several genes possibly related to the degraded scaly leaves and well-developed root system of H. ammodendron. The reference-level genome assembly presented here will provide a valuable genomic resource for studying the genome evolution of xerophytic plants, as well as for further genetic breeding studies of H. ammodendron.

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Section: Methodsmentioning

confidence: 99%

Chromosome-level genome assembly of a xerophytic plant, Haloxylon ammodendron

et al. 2022

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“…With the availability of genome sequences of sugar beet (B. vulgaris) and wild beet (B. vulgaris ssp. maritima), they can be good sources of stressrelated studies in crops [28,29]. Moreover, isolation of highly salt-and drought-tolerant beet genotypes [16,30,31] and beets' capability of growing in reclaimed lands, which are adversely affected by salt, sodicity, and poor nutrient availability [32][33][34], will help plant breeders to develop stress-resistant traits and propagate the genetic variability in beets.…”

Section: Introductionmentioning

confidence: 99%

Salt and Drought Stress Responses in Cultivated Beets (Beta vulgaris L.) and Wild Beet (Beta maritima L.)

Yolcu

Alavilli

Ganesh

et al. 2021

Plants

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Cultivated beets, including leaf beets, garden beets, fodder beets, and sugar beets, which belong to the species Beta vulgaris L., are economically important edible crops that have been originated from a halophytic wild ancestor, Beta maritima L. (sea beet or wild beet). Salt and drought are major abiotic stresses, which limit crop growth and production and have been most studied in beets compared to other environmental stresses. Characteristically, beets are salt- and drought-tolerant crops; however, prolonged and persistent exposure to salt and drought stress results in a significant drop in beet productivity and yield. Hence, to harness the best benefits of beet cultivation, knowledge of stress-coping strategies, and stress-tolerant beet varieties, are prerequisites. In the current review, we have summarized morpho-physiological, biochemical, and molecular responses of sugar beet, fodder beet, red beet, chard (B. vulgaris L.), and their ancestor, wild beet (B. maritima L.) under salt and drought stresses. We have also described the beet genes and noncoding RNAs previously reported for their roles in salt and drought response/tolerance. The plant biologists and breeders can potentiate the utilization of these resources as prospective targets for developing crops with abiotic stress tolerance.

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“…Peptides belonging to the trypsin inhibitor branch and antimicrobial peptide branch have a calculated isoelectric point of 6.7 ± 1.4 and 8.0 ± 1.3, respectively. The hit with highest similarity to bevuTI-I was found in the Beta patula genome (GenBank ID: VASJ01001109.1). The only difference from bevuTI-I is an insertion of an alanine residue at position 11.…”

Section: Results and Discussionmentioning

confidence: 99%

Discovery of a Beetroot Protease Inhibitor to Identify and Classify Plant-Derived Cystine Knot Peptides

et al. 2020

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Plant peptide protease inhibitors are important molecules in seed storage metabolism and to fight insect pests. Commonly they contain multiple disulfide bonds and are exceptionally stable molecules. In this study, a novel peptide protease inhibitor from beetroot ( Beta vulgaris ) termed bevuTI-I was isolated, and its primary structure was determined via mass spectrometry-based amino acid sequencing. By sequence homology analysis a few peptides with high similarity to bevuTI-I, also known as the Mirabilis jalapa trypsin inhibitor subfamily of knottin-type protease inhibitors, were discovered. Hence, we assessed bevuTI-I for inhibitory activity toward trypsin (IC 50 = 471 nM) and human prolyl oligopeptidase (IC 50 = 11 μM), which is an emerging drug target for neurodegenerative and inflammatory disorders. Interestingly, using a customized bioinformatics approach, bevuTI-I was found to be the missing link to annotate 243 novel sequences of M. jalapa trypsin inhibitor-like peptides. According to their phylogenetic distribution they appear to be common in several plant families. Therefore, the presented approach and our results may help to discover and classify other plant-derived cystine knot peptides, a class of plant molecules that play important functions in plant physiology and are currently being explored as lead molecules and scaffolds in drug development.

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

Cited by 34 publications

References 50 publications

Chromosome-level genome assembly of a xerophytic plant, Haloxylon ammodendron

Chromosome-level genome assembly of a xerophytic plant, Haloxylon ammodendron

Salt and Drought Stress Responses in Cultivated Beets (Beta vulgaris L.) and Wild Beet (Beta maritima L.)

Discovery of a Beetroot Protease Inhibitor to Identify and Classify Plant-Derived Cystine Knot Peptides

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