Jun 2022
Host: Professor Rod Wing
Abstract:
Prosopis cineraria
is a legume that belongs to the mimosoid clade, native to arid
environment of the Near East and Indian subcontinent. In addition to
being routinely used for health benefits, it has been shown to withstand
different abiotic stressors. However, compared to Papilionoideae
legumes with sequenced genomes of economic importance, efforts to
understand P. cineraria desert adaptation mechanism is greatly
limited by the lack of a reference genome. In this study, we sequenced a
near chromosome level assembly of P. cineraria of 690 Mb in
size, and annotated 76,554 gene models, including 53,328 protein-coding
genes. Our Orthogroups gene families specific to P. cineraria and its relative P. alba,
from the mimosoid clade show enrichment of terpenoid metabolism
pathway, which is consistent with the amplification of the terpene
synthase gene family, that is under positive selection. This finding is
consistent with the terpene synthase gene known role in chemical defense
against herbivory, pathogens, and abiotic stress. In addition, we
observed an expansion of disease resistance genes (LRRs) through
retroduplication of long terminal repeats (LTRs), which coincides with
the divergence time of P. cineraria with its relative P. alba
~23 Mya. Enrichment analysis of these retrogenes highlight pathways for
defense response as well as abiotic stress stimulus. Being under
purifying selection some retrogenes show a signature of positive
adaptive selection, and these include NB-ARC (LRR) and the early Nodulin
93 genes, where the latter is consistent with the adaptive response of
the species to low nitrogen in arid desert soil. Given all that, we
conclude that retrotransposition played a big role in the adaptive
response of P. cineraria.
Bio:
I
am plant evolutionary biologist/population genomics. I have a PhD from
the University of Toronto, where I studied mating system evolution and
its genomic consequences in Brassicaceae species under the supervision
of Stephen Wright. After my PhD, I had to take the challenge of moving
oversea and accepted an appointment as a post-doctoral researcher at the
Center for Genomics and Systems Biology at New York University Abu
Dhabi, working closely with Michael Purugganan on the evolutionary and
functional genomics of date palm and algal species. After five years as
a postdoctoral fellow, where I have established the date palm diversity
platform, I took an offer as an Research Assistant Professor at the
Khalifa Center for Genetic Engineering and Biotechnology (KCGEB) at the
United Arab Emirates University (UAEU), leading the genomic and
bioinformatic platform, where I continued working on date palm as well
as using omics methods to explore the evolution of resilient plants, and
see what we can learn from this "genetic goldmine" for translational
genomic towards crop improvement.