Unravelling molecular mechanisms from floral initiation to lipid biosynthesis in a promising biofuel tree species, Pongamia pinnata using transcriptome analysis.
Pongamia pinnata (L.) (Fabaceae) is a promising biofuel tree species which is underexploited in the areas of both fundamental and applied research, due to the lack of information either on transcriptome or genomic data. To investigate the possible metabolic pathways, we performed whole transcriptome analysis of Pongamia through Illumina NextSeq platform and generated 2.8 GB of paired end sequence reads. The de novo assembly of raw reads generated 40,000 contigs and 35,000 transcripts, representing leaf, flower and seed unigenes. Spatial and temporal expression profiles of photoperiod and floral homeotic genes in Pongamia, identified GIGANTEA (GI) - CONSTANS (CO) - FLOWERING LOCUS T (FT) as active signal cascade for floral initiation. Four prominent stages of seed development were selected in a high yielding Pongamia accession (TOIL 1) to follow the temporal expression patterns of key fatty acid biosynthetic genes involved in lipid biosynthesis and accumulation. Our results provide insights into an array of molecular events from flowering to seed maturity in Pongamia which will provide substantial basis for modulation of fatty acid composition and enhancing oil yields which should serve as a potential feedstock for biofuel production.
Department of Plant Sciences, University of Hyderabad, Hyderabad, 500046, India.
Rachapudi V
RV
Sreeharsha
Department of Plant Sciences, University of Hyderabad, Hyderabad, 500046, India.
Shalini
S
Mudalkar
Department of Plant Sciences, University of Hyderabad, Hyderabad, 500046, India.
Kambam T
KT
Singha
Department of Plant Sciences, University of Hyderabad, Hyderabad, 500046, India.
Attipalli R
AR
Reddy
PLoS One. 2012;7(12):e51687
23272141
Plant Sci. 2011 Oct;181(4):364-78
21889042
Plant J. 2012 Jun;70(5):879-90
22324449
Plant Physiol Biochem. 2009 Jun;47(6):448-55
19136270
BMC Genomics. 2012 Mar 12;13:90
22409576
J Agric Food Chem. 2015 Dec 23;63(50):10811-21
26628196
PLoS One. 2012;7(11):e49165
23145108
Proc Natl Acad Sci U S A. 2004 Apr 6;101(14):5152-7
15044700
Bioinformatics. 2012 Apr 15;28(8):1086-92
22368243
Nature. 2002 Sep 5;419(6902):74-7
12214234
Methods. 2001 Dec;25(4):402-8
11846609
Plant Cell Physiol. 2000 Sep;41(9):1002-12
11100772
Genome Res. 2008 May;18(5):821-9
18349386
Plant Mol Biol. 2014 Jan;84(1-2):159-71
24002439
Biotechnol Biofuels. 2012 Jul 18;5(1):47
22809288
J Exp Bot. 2008;59(10):2735-48
18495636
Plant Physiol. 2003 Dec;133(4):1530-8
14605220
BMC Bioinformatics. 2003 Sep 11;4:41
12969510
DNA Res. 2011 Feb;18(1):53-63
21217129
Nature. 2011 Jul 13;475(7356):398-402
21753751
Science. 2000 Aug 4;289(5480):768-71
10926537
PLoS One. 2013 Dec 12;8(12):e83549
24349529
PLoS One. 2012;7(2):e30717
22363475
Plant J. 2011 Dec;68(6):1014-27
21851431
Physiol Plant. 2014 Nov;152(3):501-19
24655305
Plant Cell Physiol. 2000 Jun;41(6):791-803
10945350
Plant Cell. 2003 Apr;15(4):1020-33
12671095
Nucleic Acids Res. 2014 Jan;42(Database issue):D1182-7
24174544
DNA Res. 2012 Apr;19(2):195-207
22351699
J Exp Bot. 2011 Jun;62(10):3359-74
20974738
Science. 2005 Nov 11;310(5750):1031-4
16284181
Mol Biol Evol. 2016 Jul;33(7):1870-4
27004904
Arabidopsis Book. 2008;6:e0113
22303238
Trends Plant Sci. 2006 Aug;11(8):375-81
16843035
BMC Genomics. 2011 Apr 15;12:191
21492485
PLoS One. 2012;7(2):e30619
22312429
Nucleic Acids Res. 2014 Sep;42(15):e119
24990371
BMC Plant Biol. 2015 Jun 18;15:147
26084534
Nucleic Acids Res. 2007 Jul;35(Web Server issue):W182-5
17526522
J Exp Bot. 2002 Jul;53(374):1551-7
12096093
Theor Appl Genet. 2007 Sep;115(5):721-33
17634915
Nature. 2007 Jul 19;448(7151):358-61
17589502
Sci Rep. 2015 May 15;5:9729
25978548
BMC Bioinformatics. 2009 Dec 15;10:421
20003500
J Exp Bot. 2009;60(9):2493-9
19414500
Plant Cell. 2005 May;17(5):1467-81
15829606
Mol Plant. 2009 Sep;2(5):1107-22
19825684
Sci Rep. 2015 Dec 04;5:17706
26635144
Plant Physiol Biochem. 2011 Feb;49(2):223-9
21215650
Plant J. 2012 Jul;71(1):71-84
22372488