Genomics and Transcriptomics Analysis of Cu Accumulator Plant Brassica nigra L.

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Authors

  • Abdul Razaque MEMON
  • Emina ZAHIROVIC

Keywords:

Brassica nigra, Genomics, transcriptomics, microRNAs, Cu accumulator, phytoremediation

Abstract

The genus Brassica contains a wide range of diploid and amphipolyploid species including some of the economically high valuable
vegetables and oilseed crops used worldwide. The major industrial and food crops in Brassica are the closest relatives to the model plant
Arabidopsis thaliana, and hence are major beneficiaries from the vast data of genomics and molecular genetics available in the database of
Arabidopsis thaliana. Extensive genetic and molecular analyses have been undertaken for the six cultivated Brassica species. The four
closely related crop species B. rapa (AA, 2n=20), B. juncea (AABB, 2n=36), B. napus (AACC, 2n=38), and B. carinata (BBCC, 2n=34) provide about 12% of the worldwide edible oil supply. The other two species B. nigra (BB, 2n=16) and B. oleracea (CC, 2n=18) provide many vegetables for healthy human diet having a valuable source of dietary fiber, vitamin C and other anticancer compounds. The comparative mapping between Arabidopsis thaliana and Brassica crop species, coupled with the base knowledge of mutation based functional analysis in Arabidopsis thaliana and QTL mapping in crop Brassicas, could greatly contribute towards a better understanding of the genetic architecture for the conserved as well as the evolved traits of agronomic value in the Brassicaceae. Brassica nigra has the second smallest genome size (~ 632 Mbp) among the six cultivated species of Brassica. Brassica species are well known as metal accumulators and some of them are being used for phytoremediation in contaminated soils. Approximately 25% of the documented metal hyper accumulating species are, like A. thaliana, members of the Brassicaceae. The super metal accumulating capacity of Arabidopsis halleri and Noccaea
caerulescens (previously Thlaspi caerulescens) have been well documented. Because of their slow growth and low biomass, other fastgrowing and high biomass brassica crop plants, for example Brassica juncea and Brassica nigra have been evaluated for their ability to
hyper accumulate metals from contaminated soils.
The Diyabeker ecotype of B. nigra collected from southeastern part of Turkey was found to be hyperaccumulator of Cu. We carried out
the comparative transcriptome analysis in order to find out the expression level of metal induced genes and transcriptome changes both in
low and high Cu treated plants. Microarray analysis showed that some of the genes were highly expressed (several hundred fold) with Cu
treated plants compared to control. Our microarray data using Affymetrix GeneChip Arabidopsis Genome Array (ATH1-121501 Genechip) indicate that possibly several genes including the genes in glutathione pathway, metal ATPase and ABC transporters are involved in metal tolerances in this ecotype. In this communication the use of molecular tools and the exploitation of Arabidopsis knowledge will be presented in detail

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Published

2019-06-11

How to Cite

MEMON, A. R., & ZAHIROVIC, E. (2019). Genomics and Transcriptomics Analysis of Cu Accumulator Plant Brassica nigra L. Journal of Applied Biological Sciences, 8(2), 01–08. Retrieved from https://jabsonline.org/index.php/jabs/article/view/393

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