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McGrath JM, Funk A, Galewski P, Ou S, Townsend B, Davenport K, Daligault H, Johnson S, Lee J, Hastie A, Darracq A, Willems G, Barnes S, Liachko I, Sullivan S, Koren S, Phillippy A, Wang J, Liu T, Pulman J, Childs K, Shu S, Yocum A, Fermin D, Mutasa-Göttgens E, Stevanato P, Taguchi K, Naegele R, Dorn KM. A contiguous de novo genome assembly of sugar beet EL10 (Beta vulgaris L.). DNA Res 2022; 30:6748264. [PMID: 36208288 PMCID: PMC9896481 DOI: 10.1093/dnares/dsac033] [Citation(s) in RCA: 8] [Impact Index Per Article: 4.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/11/2022] [Revised: 08/26/2022] [Accepted: 09/12/2022] [Indexed: 02/04/2023] Open
Abstract
A contiguous assembly of the inbred 'EL10' sugar beet (Beta vulgaris ssp. vulgaris) genome was constructed using PacBio long-read sequencing, BioNano optical mapping, Hi-C scaffolding, and Illumina short-read error correction. The EL10.1 assembly was 540 Mb, of which 96.2% was contained in nine chromosome-sized pseudomolecules with lengths from 52 to 65 Mb, and 31 contigs with a median size of 282 kb that remained unassembled. Gene annotation incorporating RNA-seq data and curated sequences via the MAKER annotation pipeline generated 24,255 gene models. Results indicated that the EL10.1 genome assembly is a contiguous genome assembly highly congruent with the published sugar beet reference genome. Gross duplicate gene analyses of EL10.1 revealed little large-scale intra-genome duplication. Reduced gene copy number for well-annotated gene families relative to other core eudicots was observed, especially for transcription factors. Variation in genome size in B. vulgaris was investigated by flow cytometry among 50 individuals producing estimates from 633 to 875 Mb/1C. Read-depth mapping with short-read whole-genome sequences from other sugar beet germplasm suggested that relatively few regions of the sugar beet genome appeared associated with high-copy number variation.
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Affiliation(s)
| | - Andrew Funk
- Plant Breeding, Genetics, and Biotechnology Program, Michigan State University, East Lansing, MI 48824, USA
| | - Paul Galewski
- Plant Breeding, Genetics, and Biotechnology Program, Michigan State University, East Lansing, MI 48824, USA
| | - Shujun Ou
- Plant Breeding, Genetics, and Biotechnology Program, Michigan State University, East Lansing, MI 48824, USA
| | - Belinda Townsend
- Department of Plant Sciences, Rothamsted Research, West Common, Harpenden, Hertfordshire AL5 2JQ, UK
| | - Karen Davenport
- Los Alamos Nat’l Lab, Biosecurity and Public Health, Los Alamos, NM 87545, USA
| | - Hajnalka Daligault
- Los Alamos Nat’l Lab, Biosecurity and Public Health, Los Alamos, NM 87545, USA
| | - Shannon Johnson
- Los Alamos Nat’l Lab, Biosecurity and Public Health, Los Alamos, NM 87545, USA
| | - Joyce Lee
- BioNano Genomics, 9640 Towne Centre Drive, San Diego, CA 92121, USA
| | - Alex Hastie
- BioNano Genomics, 9640 Towne Centre Drive, San Diego, CA 92121, USA
| | - Aude Darracq
- SESVANDERHAVE N.V., Industriepark Soldatenplein Zone 2 Nr 15, 3300 Tienen, Belgium
| | - Glenda Willems
- SESVANDERHAVE N.V., Industriepark Soldatenplein Zone 2 Nr 15, 3300 Tienen, Belgium
| | - Steve Barnes
- SESVANDERHAVE N.V., Industriepark Soldatenplein Zone 2 Nr 15, 3300 Tienen, Belgium
| | - Ivan Liachko
- Phase Genomics, 4000 Mason Road, Suite 225, Seattle, WA 98195, USA
| | - Shawn Sullivan
- Phase Genomics, 4000 Mason Road, Suite 225, Seattle, WA 98195, USA
| | - Sergey Koren
- Genome Informatics Section, Computational and Statistical Genomics Branch, National Human Genome Research Institute, Bethesda, MD, USA
| | - Adam Phillippy
- Genome Informatics Section, Computational and Statistical Genomics Branch, National Human Genome Research Institute, Bethesda, MD, USA
| | - Jie Wang
- Center for Genomics-Enabled Plant Science, Plant Biology Department, Michigan State University, East Lansing, MI 48824, USA
| | - Tiffany Liu
- Center for Genomics-Enabled Plant Science, Plant Biology Department, Michigan State University, East Lansing, MI 48824, USA
| | - Jane Pulman
- Center for Genomics-Enabled Plant Science, Plant Biology Department, Michigan State University, East Lansing, MI 48824, USA
| | - Kevin Childs
- Center for Genomics-Enabled Plant Science, Plant Biology Department, Michigan State University, East Lansing, MI 48824, USA
| | - Shengqiang Shu
- United States Department of Energy, Joint Genome Institute, Berkeley, CA, USA
| | | | | | - Effie Mutasa-Göttgens
- University of Hertfordshire, Division of Biosciences, Hatfield, Hertfordshire AL10 9AB, UK
| | | | - Kazunori Taguchi
- Hokkaido Agricultural Research Center, National Agriculture and Food Research Organization, Shinsei Memuro, Hokkaido 082-0081, Japan
| | - Rachel Naegele
- USDA-ARS Sugarbeet and Bean Research Unit, Michigan State University, 1066 Bogue St., East Lansing, MI 48824, USA
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Sandell FL, Stralis-Pavese N, McGrath JM, Schulz B, Himmelbauer H, Dohm JC. Genomic distances reveal relationships of wild and cultivated beets. Nat Commun 2022; 13:2021. [PMID: 35440134 PMCID: PMC9019029 DOI: 10.1038/s41467-022-29676-9] [Citation(s) in RCA: 9] [Impact Index Per Article: 4.5] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/06/2021] [Accepted: 03/28/2022] [Indexed: 12/01/2022] Open
Abstract
Cultivated beets (Beta vulgaris ssp. vulgaris), including sugar beet, rank among the most important crops. The wild ancestor of beet crops is the sea beet Beta vulgaris ssp. maritima. Species and subspecies of wild beets are readily crossable with cultivated beets and are thus available for crop improvement. To study genomic relationships in the genus Beta, we sequence and analyse 606 beet genomes, encompassing sugar beet, sea beet, B. v. adanensis, B. macrocarpa, and B. patula. We observe two genetically distinct groups of sea beets, one from the Atlantic coast and the other from the Mediterranean area. Genomic comparisons based on k-mers identify sea beets from Greece as the closest wild relatives of sugar beet, suggesting that domestication of the ancestors of sugar beet may be traced to this area. Our work provides comprehensive insight into the phylogeny of wild and cultivated beets and establishes a framework for classification of further accessions of unknown (sub-)species assignment.
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Affiliation(s)
- Felix L Sandell
- University of Natural Resources and Life Sciences, Vienna, Department of Biotechnology, Institute of Computational Biology, Vienna, Austria
| | - Nancy Stralis-Pavese
- University of Natural Resources and Life Sciences, Vienna, Department of Biotechnology, Institute of Computational Biology, Vienna, Austria
| | | | | | - Heinz Himmelbauer
- University of Natural Resources and Life Sciences, Vienna, Department of Biotechnology, Institute of Computational Biology, Vienna, Austria.
| | - Juliane C Dohm
- University of Natural Resources and Life Sciences, Vienna, Department of Biotechnology, Institute of Computational Biology, Vienna, Austria.
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3
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Hanson SJ, Dawson JC, Goldman IL. Beta vulgaris ssp. vulgaris chromosome 8 shows significant association with geosmin concentration in table beet. G3 (BETHESDA, MD.) 2021; 11:jkab344. [PMID: 34586384 PMCID: PMC8664477 DOI: 10.1093/g3journal/jkab344] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Subscribe] [Scholar Register] [Received: 05/24/2021] [Accepted: 09/20/2021] [Indexed: 11/29/2022]
Abstract
Geosmin, a degraded sesquiterpene molecule with earthy and musty odor, imbues table beet with its characteristic aroma. Geosmin is heritable and endogenously produced in table beet; its earthy aroma is sought by some consumers but deters others. Geosmin biosynthesis is catalyzed by a bifunctional geosmin synthase enzyme in diverse bacteria and fungi, but a mechanism for geosmin biosynthesis in plants has not been reported. This work employed association analysis and selective genotyping of a segregating F2:3 mapping population to seek QTL associated with geosmin concentration in table beet. GBS reads were aligned to sugar beet reference genome EL10.2, and association analysis revealed two QTL for geosmin concentration on Beta vulgaris ssp. vulgaris chromosome 8. QTL at EL10.2 positions 28,017,624 and 38,488,687 each show effect size 8.7 μg·kg-1 geosmin and explain 8.5% and 6.4% of total variation in geosmin concentration, respectively. Resolution was low due to large recombination bin size and imperfect alignment between the reference genome and mapping population, but population size and selection proportion were sufficient to detect moderate to large effect QTL. This study, the first molecular genetic mapping experiment in table beet, succeeded in finding QTL for geosmin concentration in table beet, and it provides the basis for fine mapping or candidate gene investigation of functional loci for this distinctive sensory trait.
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Affiliation(s)
- Solveig J Hanson
- Centre for Sustainable Food Systems, The University of British Columbia, Vancouver, BC V6T 1Z4, Canada
| | - Julie C Dawson
- Department of Horticulture, University of Wisconsin—Madison, Madison, WI 53706, USA
| | - Irwin L Goldman
- Department of Horticulture, University of Wisconsin—Madison, Madison, WI 53706, USA
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High-Throughput Genotyping Technologies in Plant Taxonomy. Methods Mol Biol 2021; 2222:149-166. [PMID: 33301093 DOI: 10.1007/978-1-0716-0997-2_9] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/25/2023]
Abstract
Molecular markers provide researchers with a powerful tool for variation analysis between plant genomes. They are heritable and widely distributed across the genome and for this reason have many applications in plant taxonomy and genotyping. Over the last decade, molecular marker technology has developed rapidly and is now a crucial component for genetic linkage analysis, trait mapping, diversity analysis, and association studies. This chapter focuses on molecular marker discovery, its application, and future perspectives for plant genotyping through pangenome assemblies. Included are descriptions of automated methods for genome and sequence distance estimation, genome contaminant analysis in sequence reads, genome structural variation, and SNP discovery methods.
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Galewski P, McGrath JM. Genetic diversity among cultivated beets (Beta vulgaris) assessed via population-based whole genome sequences. BMC Genomics 2020; 21:189. [PMID: 32122300 PMCID: PMC7053042 DOI: 10.1186/s12864-020-6451-1] [Citation(s) in RCA: 18] [Impact Index Per Article: 4.5] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/27/2019] [Accepted: 01/03/2020] [Indexed: 12/14/2022] Open
Abstract
Background Diversification on the basis of utilization is a hallmark of Beta vulgaris (beet), as well as other crop species. Often, crop improvement and management activities are segregated by crop type, thus preserving unique genome diversity and organization. Full interfertility is typically retained in crosses between these groups and more traits may be accessible if the genetic basis of crop type lineage were known, along with available genetic markers to effect efficient transfer (e.g., via backcrossing). Beta vulgaris L. (2n =18) is a species complex composed of diverged lineages (e.g., crop types), including the familiar table, leaf (chard), fodder, and sugar beet crop types. Using population genetic and statistical methods with whole genome sequence data from pooled samples of 23 beet cultivars and breeding lines, relationships were determined between accessions based on identity-by-state metrics and shared genetic variation among lineages. Results Distribution of genetic variation within and between crop types showed extensive shared (e.g. non-unique) genetic variation. Lineage specific variation (e.g. apomorphy) within crop types supported a shared demographic history within each crop type, while principal components analysis revealed strong crop type differentiation. Relative contributions of specific chromosomes to genome wide differentiation were ascertained, with each chromosome revealing a different pattern of differentiation with respect to crop type. Inferred population size history for each crop type helped integrate selection history for each lineage, and highlighted potential genetic bottlenecks in the development of cultivated beet lineages. Conclusions A complex evolutionary history of cultigroups in Beta vulgaris was demonstrated, involving lineage divergence as a result of selection and reproductive isolation. Clear delineation of crop types was obfuscated by historical gene flow and common ancestry (e.g. admixture and introgression, and sorting of ancestral polymorphism) which served to share genome variation between crop types and, likely, important phenotypic characters. Table beet was well differentiated as a crop type, and shared more genetic variation within than among crop types. The sugar beet group was not quite as well differentiated as the table beet group. Fodder and chard groups were intermediate between table and sugar groups, perhaps the result of less intensive selection for end use.
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Affiliation(s)
- Paul Galewski
- Department of Plant, Soil, and Microbial Science, Plant Breeding, Genetics, and Biotechnology Program, Michigan State University, 1066 Bogue Street, East Lansing, MI, 48824, USA.
| | - J Mitchell McGrath
- USDA-ARS, Sugarbeet and Bean Research Unit, 1066 Bogue Street, 494 PSSB, East Lansing, MI, 48824, USA
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Rodríguez del Río Á, Minoche AE, Zwickl NF, Friedrich A, Liedtke S, Schmidt T, Himmelbauer H, Dohm JC. Genomes of the wild beets Beta patula and Beta vulgaris ssp. maritima. THE PLANT JOURNAL : FOR CELL AND MOLECULAR BIOLOGY 2019; 99:1242-1253. [PMID: 31104348 PMCID: PMC9546096 DOI: 10.1111/tpj.14413] [Citation(s) in RCA: 16] [Impact Index Per Article: 3.2] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 03/01/2019] [Revised: 04/23/2019] [Accepted: 05/02/2019] [Indexed: 05/04/2023]
Abstract
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.
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Affiliation(s)
- Álvaro Rodríguez del Río
- University of Natural Resources and Life Sciences (BOKU)1190ViennaAustria
- Present address:
Centro de Biotecnología y Genómica de PlantasUPM – INIA28223MadridSpain
| | - André E. Minoche
- Garvan Institute of Medical ResearchDarlinghurst2010NSWAustralia
| | - Nikolaus F. Zwickl
- University of Natural Resources and Life Sciences (BOKU)1190ViennaAustria
| | - Anja Friedrich
- University of Natural Resources and Life Sciences (BOKU)1190ViennaAustria
- Present address:
FH Campus WienUniversity of Applied Sciences1030ViennaAustria
| | | | | | - Heinz Himmelbauer
- University of Natural Resources and Life Sciences (BOKU)1190ViennaAustria
| | - Juliane C. Dohm
- University of Natural Resources and Life Sciences (BOKU)1190ViennaAustria
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Cultrera NGM, Sarri V, Lucentini L, Ceccarelli M, Alagna F, Mariotti R, Mousavi S, Ruiz CG, Baldoni L. High Levels of Variation Within Gene Sequences of Olea europaea L. FRONTIERS IN PLANT SCIENCE 2019; 9:1932. [PMID: 30671076 PMCID: PMC6331486 DOI: 10.3389/fpls.2018.01932] [Citation(s) in RCA: 7] [Impact Index Per Article: 1.4] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 09/20/2018] [Accepted: 12/12/2018] [Indexed: 05/08/2023]
Abstract
Gene sequence variation in cultivated olive (Olea europaea L. subsp. europaea var. europaea), the most important oil tree crop of the Mediterranean basin, has been poorly evaluated up to now. A deep sequence analysis of fragments of four genes, OeACP1, OeACP2, OeLUS and OeSUT1, in 90 cultivars, revealed a wide range of polymorphisms along all recognized allele forms and unexpected allele frequencies and genotype combinations. High linkage values among most polymorphisms were recorded within each gene fragment. The great sequence variability corresponded to a low number of alleles and, surprisingly, to a small fraction of genotype combinations. The distribution, frequency, and combination of the different alleles at each locus is possibly due to natural and human pressures, such as selection, ancestrality, or fitness. Phylogenetic analyses of allele sequences showed distant and complex patterns of relationships among cultivated olives, intermixed with other related forms, highlighting an evolutionary connection between olive cultivars and the O. europaea subspecies cuspidata and cerasiformis. This study demonstrates how a detailed and complete sequence analysis of a few gene portions and a thorough genotyping on a representative set of cultivars can clarify important issues related to sequence polymorphisms, reconstructing the phylogeny of alleles, as well as the genotype combinations. The identification of regions representing blocks of recombination could reveal polymorphisms that represent putatively functional markers. Indeed, specific mutations found on the analyzed OeACP1 and OeACP2 fragments seem to be correlated to the fruit weight.
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Affiliation(s)
- Nicolò G. M. Cultrera
- Institute of Biosciences and Bioresources, National Research Council, Perugia, Italy
| | - Vania Sarri
- Department of Chemistry, Biology and Biotechnology, University of Perugia, Perugia, Italy
| | - Livia Lucentini
- Department of Chemistry, Biology and Biotechnology, University of Perugia, Perugia, Italy
| | - Marilena Ceccarelli
- Department of Chemistry, Biology and Biotechnology, University of Perugia, Perugia, Italy
| | - Fiammetta Alagna
- ENEA Italian National Agency for New Technologies Energy and Sustainable Economic Development, Trisaia Research Center, Rotondella, Italy
| | - Roberto Mariotti
- Institute of Biosciences and Bioresources, National Research Council, Perugia, Italy
| | - Soraya Mousavi
- Institute of Biosciences and Bioresources, National Research Council, Perugia, Italy
| | | | - Luciana Baldoni
- Institute of Biosciences and Bioresources, National Research Council, Perugia, Italy
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Manel S, Andrello M, Henry K, Verdelet D, Darracq A, Guerin PE, Desprez B, Devaux P. Predicting genotype environmental range from genome-environment associations. Mol Ecol 2018; 27:2823-2833. [DOI: 10.1111/mec.14723] [Citation(s) in RCA: 15] [Impact Index Per Article: 2.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/12/2017] [Revised: 04/12/2018] [Accepted: 05/02/2018] [Indexed: 01/04/2023]
Affiliation(s)
- Stéphanie Manel
- EPHE; PSL Research University; CNRS, UM, SupAgro, IND, INRA; UMR 5175 CEFE; Montpellier France
| | - Marco Andrello
- EPHE; PSL Research University; CNRS, UM, SupAgro, IND, INRA; UMR 5175 CEFE; Montpellier France
| | | | | | | | - Pierre-Edouard Guerin
- EPHE; PSL Research University; CNRS, UM, SupAgro, IND, INRA; UMR 5175 CEFE; Montpellier France
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9
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Touzet P, Villain S, Buret L, Martin H, Holl A, Poux C, Cuguen J. Chloroplastic and nuclear diversity of wild beets at a large geographical scale: Insights into the evolutionary history of the Beta section. Ecol Evol 2018; 8:2890-2900. [PMID: 29531703 PMCID: PMC5838056 DOI: 10.1002/ece3.3774] [Citation(s) in RCA: 7] [Impact Index Per Article: 1.2] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/27/2017] [Revised: 12/06/2017] [Accepted: 12/11/2017] [Indexed: 11/09/2022] Open
Abstract
Historical demographic processes and mating systems are believed to be major factors in the shaping of the intraspecies genetic diversity of plants. Among Caryophyllales, the Beta section of the genus Beta, within the Amaranthaceae/Chenopodiaceae alliance, is an interesting study model with species and subspecies (Beta macrocarpa, Beta patula, Beta vulgaris maritima and B.v. adanensis) differing in geographical distribution and mating system. In addition, one of the species, B. macrocarpa, mainly diploid, varies in its level of ploidy with a tetraploid cytotype described in the Canary Islands and in Portugal. In this study, we analyzed the nucleotide diversity of chloroplastic and nuclear sequences on a representative sampling of species and subspecies of the Beta section (except B. patula). Our objectives were (1) to assess their genetic relationships through phylogenetic and multivariate analyses, (2) relate their genetic diversity to their mating system, and (3) reconsider the ploidy status and the origin of the Canarian Beta macrocarpa.
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Affiliation(s)
- Pascal Touzet
- Univ. LilleCNRS, UMR 8198 – Evo‐Eco‐PaleoLilleFrance
| | - Sarah Villain
- Univ. LilleCNRS, UMR 8198 – Evo‐Eco‐PaleoLilleFrance
| | | | - Hélène Martin
- Univ. LilleCNRS, UMR 8198 – Evo‐Eco‐PaleoLilleFrance
| | | | - Céline Poux
- Univ. LilleCNRS, UMR 8198 – Evo‐Eco‐PaleoLilleFrance
| | - Joël Cuguen
- Univ. LilleCNRS, UMR 8198 – Evo‐Eco‐PaleoLilleFrance
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Monteiro F, Frese L, Castro S, Duarte MC, Paulo OS, Loureiro J, Romeiras MM. Genetic and Genomic Tools to Asssist Sugar Beet Improvement: The Value of the Crop Wild Relatives. FRONTIERS IN PLANT SCIENCE 2018; 9:74. [PMID: 29467772 PMCID: PMC5808244 DOI: 10.3389/fpls.2018.00074] [Citation(s) in RCA: 23] [Impact Index Per Article: 3.8] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 11/11/2017] [Accepted: 01/15/2018] [Indexed: 05/21/2023]
Abstract
Sugar beet (Beta vulgaris L. ssp. vulgaris) is one of the most important European crops for both food and sugar production. Crop improvement has been developed to enhance productivity, sugar content or other breeder's desirable traits. The introgression of traits from Crop Wild Relatives (CWR) has been done essentially for lessening biotic stresses constraints, namely using Beta and Patellifolia species which exhibit disease resistance characteristics. Several studies have addressed crop-to-wild gene flow, yet, for breeding programs genetic variability associated with agronomically important traits remains unexplored regarding abiotic factors. To accomplish such association from phenotype-to-genotype, screening for wild relatives occurring in habitats where selective pressures are in play (i.e., populations in salt marshes for salinity tolerance; populations subjected to pathogen attacks and likely evolved resistance to pathogens) are the most appropriate streamline to identify causal genetic information. By selecting sugar beet CWR species based on genomic tools, rather than random variations, is a promising but still seldom explored route toward the development of improved crops. In this perspective, a viable streamline for sugar beet improvement is proposed through the use of different genomic tools by recurring to sugar beet CWRs and focusing on agronomic traits associated with abiotic stress tolerance. Overall, identification of genomic and epigenomic landscapes associated to adaptive ecotypes, along with the cytogenetic and habitat characterization of sugar beet CWR, will enable to identify potential hotspots for agrobiodiversity of sugar beet crop improvement toward abiotic stress tolerance.
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Affiliation(s)
- Filipa Monteiro
- Centre for Ecology, Evolution and Environmental Changes, Faculdade de Ciências Universidade de Lisboa, Lisboa, Portugal
- Linking Landscape, Environment, Agriculture and Food, Instituto Superior de Agronomia, Universidade de Lisboa, Lisboa, Portugal
| | - Lothar Frese
- Institute for Breeding Research on Agricultural Crops, Julius Kühn-Institut, Federal Research Centre for Cultivated Plants (JKI), Quedlinburg, Germany
| | - Sílvia Castro
- Department of Life Sciences, Centre for Functional Ecology, Universidade de Coimbra, Coimbra, Portugal
| | - Maria C. Duarte
- Centre for Ecology, Evolution and Environmental Changes, Faculdade de Ciências Universidade de Lisboa, Lisboa, Portugal
| | - Octávio S. Paulo
- Centre for Ecology, Evolution and Environmental Changes, Faculdade de Ciências Universidade de Lisboa, Lisboa, Portugal
| | - João Loureiro
- Department of Life Sciences, Centre for Functional Ecology, Universidade de Coimbra, Coimbra, Portugal
| | - Maria M. Romeiras
- Centre for Ecology, Evolution and Environmental Changes, Faculdade de Ciências Universidade de Lisboa, Lisboa, Portugal
- Linking Landscape, Environment, Agriculture and Food, Instituto Superior de Agronomia, Universidade de Lisboa, Lisboa, Portugal
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