High-throughput sequencing-based gene profiling on multi-staged fruit development of date palm (Phoenix dactylifera, L.).

Plant Molecular Biology
Yuxin YinJun Yu

Abstract

Date palm provides both staple food and gardening for the Middle East and North African countries for thousands of years. Its fruits have diversified significantly, such as nutritional content, size, length, weight color, and ripping process. Dates palm represent an excellent model system for the study of fruit development and diversity of fruit-bearing palm species that produce the most versatile fruit types as compared to other plant families. Using Roche/454 GS FLX instrument, we acquired 7.6 million sequence tags from seven fruiting stages (F1-F7). Over 99% of the raw reads are assembled, and the numbers of isotigs (equivalent to transcription units or unigenes) range from 30,684 to 40,378 during different fruiting stages. We annotated isotigs using BLASTX and BLASTN, and mapped 74% of the isotigs to known functional sequences or genes. Based on gene ontology categorization and pathway analysis, we have identified 10 core cell division genes, 18 ripening related genes, and 7 starch metabolic enzymes, which are involved as nutrition storage and sugar/starch metabolisms. We noticed that many metabolic pathways vary significantly during fruit development, and carbohydrate metabolism (especially sugar synthesis) is particularly...Continue Reading

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Citations

Aug 7, 2013·Nature Communications·Ibrahim S Al-MssallemJun Yu
Sep 22, 2015·Molecular Genetics and Genomics : MGG·Jia WangYingchun Wang
Sep 8, 2017·Frontiers in Plant Science·Muhammad N SattarSuliman A Al-Khateeb
Oct 20, 2018·Genes·Muriel Gros-BalthazardJonathan Mark Flowers
Jan 1, 2014·Horticulture Research·Claudius MarondedzeLudivine Thomas
Jul 15, 2020·Scientific Reports·Abdul Latif KhanAhmed Al-Rawahi
Feb 3, 2021·Journal of Experimental Botany·Irene Garcia-MaquilonPedro L Rodriguez

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Datasets Mentioned

BETA
SRA045434.3

Methods Mentioned

BETA
PCR
Chip

Software Mentioned

Isotigs
Oligo6
BlastN
454 Newbler
Newbler
nr
BLAST
Roche
nt
BlastX

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