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Abstract Detail



Comparative Genomics/Transcriptomics

Yocca, Alan [1], Lu, Zefu [2], Schmitz, Bob [3], Edger, Patrick [4].

Species level variation in Conserved Non-coding Sequences.

Recent pangenome studies have revealed that a large fraction (>20%) of the gene content within a species exhibits presence-absence variation (PAV). However, coding regions alone provide an incomplete assessment of functional genomic sequence variation at the species level. Little to no attention has been paid to non-coding regulatory regions in pangenome studies, though these sequences directly control gene expression. To uncover critically important regulatory genetic variation, we generated chromosome-scale genome assemblies for thirty separate ecotypes and characterized species level variation in Conserved Non-coding Sequences (CNS) within Brassicaceae. Our analyses uncovered not only evidence for PAV and Positional Variation (PosV) but that diversity in CNS is non-random, with several shared variants across different ecotypes which align with overall genetic differentiation. Using evolutionary analyses and open chromatin data, we provide further evidence conserved and variable CNS are functional. Characterizing species-level diversity in functional genomic sequences may later uncover previously unknown mechanistic links between genotype and phenotype.


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1 - Michigan State University, Horticulture, 1066 Bogue St. Room A317, East Lansing, MI, 48823, United States
2 - The University of Georgia, B416 Davison Life Sciences, 120 East Green Street,, Athens, GA, 30602, United States
3 - The University of Georgia, Department of Genetics, B416 Davison Life Sciences, 120 East Green Street, , Athens, GA, 30602, USA
4 - Michigan State University, Department of Horticulture, 1066 Bogue St, Room A334, East Lansing, MI, 48824, USA

Keywords:
comparative genomics
evolution
Epigenetics
CNS
Genome Evolution
Pangenomics.

Presentation Type: Oral Paper
Session: CG1, Comparative Genetics/Genomics I
Location: Tucson I/Starr Pass
Date: Tuesday, July 30th, 2019
Time: 8:30 AM
Number: CG1001
Abstract ID:935
Candidate for Awards:Margaret Menzel Award


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