transcriptomics-2017-posters-accepted-abstracts

3 / 6

Page 23
Notes:
conferenceseries.com
Volume 5, Issue 3 (Suppl) Transcriptomics
ISSN: 2329-8936 TOA, an open access journal Transcriptomics 2017
October 30-31, 2017
October 30-31, 2017 Bangkok, Thailand
3rd International Conference on
Transcriptomics
Analysis of up-regulatedgene families duringLangramango (Mangifera indicaL. ) fruit development
Zainab Khanum, Atta-ur-Rahman, M Iqbal Choudhary and M Kamran Azim
University of Karachi, Pakistan
Langra mango fruit is the export quality variety of Pakistan. This variety is well known for its taste and aroma. Much of the
transcriptomics work has been conducted on the ripening physiology of the mango fruit but there has been less focus on
the mango organogenesis. To better understand the temporal and spatial dynamics during the mango fruit’s development, the
plant’s developmental genetics approach was followed. This approach involved mRNA sequencing by using the SOLiD 5500TM
Genetic Analyzer platform. De novo transcriptome assembly and de novo transcript quantification was carried out for eight
different developmental stages of a Langra mango fruit by using SATRAP assembler pipeline and RSEM, respectively. BLASTx
program for NCBI nr-database, KAAS and BlastKOALA tools were used for gene functional annotation andmetabolic pathways
identification. Simple sequence repeats in transcripts were identified by GMATA software. This revealed a repertoire of up-
regulated gene families during development with no prior literature support. Around ten gene families are enriched during the
Langra mango fruit’s development. Up-regulated genes involved in plant’s development, embryogenesis and immune response
were classified, especially the GIGANTEA (GI) nuclear protein gene. GI gene is climate and photoperiod regulated and is a
key player in plant’s circadian clock control, flowering time regulation, drought tolerance and salt tolerance. Up-regulated gene
products were also classified which are responsible for ROS control and have nutraceutical properties including defense against
cancers and human pathogens. The Langra mango fruit’s developmental transcriptome was also compared with the mango
transcriptomes from Pakistan, China and Mexico.
Recent Publications
References
1. Azim MK, Khan IA, Zhang Y (2014) Characterization of Mango (Mangifera indica. L) transcriptome and chloroplast genome. Plant Molecular Biology; 85 (1-2):193-208.
2. Velu Sivankalyani and Noam Alkan et. al. (2016) Transcriptome Dynamics in Mango Fruit Peel Reveals Mechanisms of Chilling Stress. Frontiers in Plant Science.
3. Joanna M, Abril I and Richard D. Emes (2015) Assembly, Assessment, and Availability of De novo Generated Eukaryotic Transcriptomes. Front Genet.; 6: 361.
4. Van Schie CC and Takken FL (2014) Susceptibility genes 101: how to be a good host. Annual Rev Phytopathol; 52:551-81.
5. Kerstin K, Alice P and Gerco C (2010) Regulation of transcription in plants: mechanisms controlling developmental switches. Nature Reviews Gene; DOI:10.1038/nrg2885
Biography
Zainab Khanum has her expertise in transcriptomics. Her research interests include developmental genetics and human cancers related functional genomics. She is
a Biotechnology graduate from University of Karachi, Pakistan. She is currently enrolled in PhD program at International Center for Chemical and Biological Sciences,
University of Karachi, Pakistan. She has expertise in manual extraction of high quality total RNA, next generation mRNA sequencing and bioinformatics. She looks
forward to conduct her future research on projects that will benefit the health sector, agriculture sector and economy of her country.
Zainab Khanum et al., Transcriptomics 2017, 5:3 (Suppl)
DOI: 10.4172/2329-8936-C1-016