De novo genome assembly of Cercospora beticola for microsatellite marker development and validation |
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| Institution: | 1. School of Integrative Plant Science, Plant Pathology & Plant-Microbe Biology Section, Cornell University, Geneva, NY, USA;2. Cornell Cooperative Extension, Canandaigua, NY, USA;3. USDA – ARS, Northern Crop Science Laboratory, Fargo, ND, USA;4. USDA – ARS, Sugar Beet and Bean Research Unit, Michigan State University, MI, USA;5. Department of Plant Pathology, North Dakota State University, Fargo, ND, USA;1. LUNAM Université, GEROM-LHEA, Institut de Biologie en Santé, Angers, France;2. LUNAM Université, SCIAM, Institut de Biologie en Santé, Angers, France;1. ICAR-Central Research Institute for Jute and Allied Fibres, Barrackpore, Kolkata 700120, India;2. Sunnhemp Research Station, ICAR-Central Research Institute for Jute and Allied Fibres, Pratapgarh, Uttar Pradesh, India;1. Graduate School of Science and Technology, Shizuoka University, Japan;2. Faculty of Science, Shizuoka University, Japan;3. National Institute for Fusion Science, Japan;4. Research Institute for Applied Mechanics, Kyushu University, Japan;1. Department of Plant Protection, Faculty of Agricultural Science and Engineering, College of Agriculture and Natural Resources, University of Tehran, Karaj 77871-31587, Iran;2. Institute of Sciences of Food Production, National Research Council (ISPA-CNR), via Amendola 122/O, 70126 Bari, Italy |
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| Abstract: | Cercospora leaf spot caused by Cercospora beticola is a significant threat to the production of sugar and table beet worldwide. A de novo genome assembly of C. beticola was used to develop eight polymorphic and reproducible microsatellite markers for population genetic analyses. These markers were used, along with five previously described microsatellite loci to genotype two C. beticola populations from table beet fields in New York, USA. High allelic and genotypic diversity and low population differentiation were found between fields. Linkage disequilibrium of loci after clone-correction of datasets was attributed to the presence of two distinct clonal lineages within the populations. Linkage equilibrium of loci in one of the clusters supported the presence of sexual reproduction. The draft de novo genome assembly will help elucidate the reproductive system of C. beticola through investigating evidence of recombination in the C. beticola genome. |
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| Keywords: | Microsatellite Population genetics SSR Sugar beet Swiss chard Table beet |
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