Abstract Detail

Comparative Genomics/Transcriptomics

Rahmatpour, Nasim [1], Kuo, Li-Yaung [2], Kang, Jessica [3], Herman, Elaina [3], Zhou, Junhui [3], Wolniak, Stephen [3], Zipper, Richard [4], Delwiche, Charles [5], Mount, Stephan M [6], Li, Fay-Wei [7].

A chromosome-scale genome assembly of the fern Marsilea vestita.

To date, only two fern genomes have been published,neither of which was assembled at the chromosomal level. With such a limited genomic resource, it has been difficult to gain a holistic view of the fern genome space. Here, we report the genome assembly and annotation of Marsilea vestita (Marsileaceae), which has been a model for male gametophyte development, including posttranscriptional regulation and intron retention. Using a combination of nanopore long reads, Illumina short reads, and high-throughput chromosome conformation capture (Hi-C), we assembled the genome into 20 chromosomes. We annotated the genome based on protein evidence and 18 RNA-seq libraries from leaf tissues, as well as different time intervals of spermatogenesis and treatments. Our data provides a much-needed basis for future comparative genomic studies to understand the history of whole genome duplication, gene family evolution, RNA processing and the dynamics of transposable elements.

1 - Boyce Thompson Institute, 533 Tower Road, Ithaca, NY, 14850, USA
2 - National Tsing Hua University, Institute of Molecular & Cellular Biology, Hsinchu, Taiwan
3 - Department of Cell Biology and Molecular Genetics, University of Maryland, Maryland, USA
4 - Department of Cell Biology and Molecular Genetics, University of Maryland, College Park, USA
5 - University Of Maryland, CELL BIOLOGY AND MOLECULAR GENETICS, Biosciences Research Building, 4066 Campus Drive, College Park, MD, 20742, United States
6 - Institute of Molecular & Cellular Biology, National Tsing Hua University, Hsinchu, , Taiwan
7 - Boyce Thompson Institute, 533 Tower Rd, Ithaca, NY, 14853, United States

Keywords:
Marsilea vestita
chromosome number
genome evolution.

Presentation Type: Oral Paper
Session: CGT3, Comparative Genomics/Transcriptomics III
Location: /
Date: Tuesday, July 20th, 2021
Time: 4:00 PM(EDT)
Number: CGT3005
Abstract ID:864
Candidate for Awards:Margaret Menzel Award