scholarly journals Comparative genomic and transcriptomic analysis of selected fatty acid biosynthesis genes and CNL disease resistance genes in oil palm

PLoS ONE ◽  
2018 ◽  
Vol 13 (4) ◽  
pp. e0194792 ◽  
Author(s):  
Rozana Rosli ◽  
Nadzirah Amiruddin ◽  
Mohd Amin Ab Halim ◽  
Pek-Lan Chan ◽  
Kuang-Lim Chan ◽  
...  
Keyword(s):  
Disease Resistance ◽  
Fatty Acid ◽  
Resistance Genes ◽  
Oil Palm ◽  
Fatty Acid Biosynthesis ◽  
Disease Resistance Genes ◽  
Transcriptomic Analysis ◽  
Comparative Genomic ◽  
Acid Biosynthesis

scholarly journals Abscisic Acid Improves Linoleic Acid Accumulation Possibly by Promoting Expression of EgFAD2 and Other Fatty Acid Biosynthesis Genes in Oil Palm Mesocarp

2021 ◽  
Vol 12 ◽  
Author(s):  
Peng Shi ◽  
Wei Hua ◽  
Yin Min Htwe ◽  
Dapeng Zhang ◽  
Jun Li ◽  
...  
Keyword(s):  
Abscisic Acid ◽  
Fatty Acid ◽  
Linoleic Acid ◽  
Oil Palm ◽  
Fatty Acid Biosynthesis ◽  
Enrichment Analysis ◽  
Linoleic Acid Content ◽  
Pathway Enrichment Analysis ◽  
Acid Biosynthesis ◽  
Palm Fruit

Abscisic acid plays an important role in fruit development. However, the effect of ABA on fatty acid biosynthesis in oil palm is still unknown. In this study, ABA treatments (CK, A1–A4) were applied to oil palm fruit at 16 WAP (weeks after pollination), and fatty acids in the mesocarp at 24 WAP were analyzed by GC-MS. Results showed that linoleic acid content under treatment A2 (20 μM ABA) was significantly higher (slightly increased by 8.33%) than the control. Therefore, mesocarp samples of A2, and the control at 16, 20, and 24 WAP was sampled for RNA-Seq. KEGG pathway enrichment analysis showed that 43 genes were differentially expressed in the fatty acid biosynthesis pathway, of which expression of EgFAD2 (unigene 105050201) under 20 μM ABA treatment was 1.84-fold higher than in the control at 20 WAP. Further sequence analysis found that unigene 105050201 had more ABA-responsive elements (ABRE), complete conserved domains, and a C-terminal signaling motif among two FAD2 copies. Furthermore, WGCNA and correlation analysis showed co-expression of EgFAD2 (unigene 105050201) with transcription factors (TFs) (WRI1, AP2-EREBP, bZIP, bHLH, C2C2-Dof, MYB, NAC, and WRKY), ABA signaling genes (PYR, PP2C, SnRK, and ABI5), and other genes involved in fatty acid biosynthesis (FATA, FATB, LACS, SAD, Oleosins, and so on). These results indicated that ABA treatment promoted the expression of FAD2 and other genes involved in fatty acid biosynthesis, which possibly resulted in the accumulation of linoleic acid. This study will be helpful for understanding the possible mechanisms through which ABA affects fatty acid biosynthesis and their accumulation in the mesocarp of oil palm.

scholarly journals Pan-transcriptomic analysis identified common differentially expressed genes of Acinetobacter baumannii in response to polymyxin treatments

2020 ◽  
Vol 16 (4) ◽  
pp. 327-338
Author(s):  
Mengyao Li ◽  
Su Mon Aye ◽  
Maizbha Uddin Ahmed ◽  
Mei-Ling Han ◽  
Chen Li ◽  
...  
Keyword(s):  
Fatty Acid ◽  
Acinetobacter Baumannii ◽  
Outer Membrane ◽  
Differentially Expressed Genes ◽  
Fatty Acid Biosynthesis ◽  
Efflux Pumps ◽  
Transcriptomic Analysis ◽  
Differentially Expressed ◽  
Acid Biosynthesis

Our pan-transcriptomic study for polymyxin-treated A. baumannii identified that the remodelled outer membrane, up-regulated efflux pumps and down-regulated fatty acid biosynthesis might be essential for early responses to polymyxins in A. baumannii.

scholarly journals Evidence-based gene models for structural and functional annotations of the oil palm genome

2017 ◽  
Author(s):  
Chan Kuang Lim ◽  
Tatiana V. Tatarinova ◽  
Rozana Rosli ◽  
Nadzirah Amiruddin ◽  
Norazah Azizi ◽  
...  
Keyword(s):  
Fatty Acid ◽  
Oil Palm ◽  
Fatty Acid Biosynthesis ◽  
Gene Prediction ◽  
Biological Data ◽  
Acid Biosynthesis ◽  
Important Resource ◽  
Intronless Genes ◽  
Starting Point ◽  
And Function

AbstractThe advent of rapid and inexpensive DNA sequencing has led to an explosion of data that must be transformed into knowledge about genome organization and function. Gene prediction is customarily the starting point for genome analysis. This paper presents a bioinformatics study of the oil palm genome, including a comparative genomics analysis, database and tools development, and mining of biological data for genes of interest. We annotated 26,087 oil palm genes integrated from two gene-prediction pipelines, Fgenesh++ and Seqping. As case studies, we conducted comprehensive investigations on intronless, resistance and fatty acid biosynthesis genes, and demonstrated that the current gene prediction set is of high quality. 3,672 intronless genes were identified in the oil palm genome, an important resource for evolutionary study. Further scrutiny of the oil palm genes revealed 210 candidate resistance genes involved in pathogen defense. Fatty acids have diverse applications ranging from food to industrial feedstock, and we identified 42 key genes involved in fatty-acid biosynthesis in oil palm mesocarp and kernel. These results provide an important resource for studies on plant genomes and a theoretical foundation for marker-assisted breeding of oil palm and related crops.

Inhibition of early steps of de novo fatty-acid biosynthesis by different xenobiotica

1991 ◽  
Vol 81 (2) ◽  
pp. 251-255
Author(s):  
Manfred Focke ◽  
Andrea Feld ◽  
Hartmut K. Lichtenthaler
Keyword(s):  
Fatty Acid ◽  
Fatty Acid Biosynthesis ◽  
De Novo ◽  
Acid Biosynthesis

Genome-Wide Analysis of NBS-Encoding Disease Resistance Genes in Maize Inbred Line B73

2009 ◽  
Vol 35 (3) ◽  
pp. 566-570 ◽  
Author(s):  
Jie-Ming WANG ◽  
Hai-Yang JIANG ◽  
Yang ZHAO ◽  
Yan XIANG ◽  
Su-Wen ZHU ◽  
...  
Keyword(s):  
Disease Resistance ◽  
Inbred Line ◽  
Resistance Genes ◽  
Disease Resistance Genes ◽  
Maize Inbred Line ◽  
Genome Wide Analysis ◽  
Genome Wide

Comparative Mapping of Three Bacterial, Three Fungal, and One Virus Disease-resistance Genes in Common Bean

HortScience ◽  
1998 ◽  
Vol 33 (3) ◽  
pp. 547a-547
Author(s):  
Geunhwa Jung ◽  
James Nienhuis ◽  
Dermot P. Coyne ◽  
H.M. Ariyarathne
Keyword(s):  
Disease Resistance ◽  
Common Bean ◽  
Pseudomonas Syringae ◽  
Resistance Genes ◽  
Fungal Pathogens ◽  
Xanthomonas Campestris ◽  
Virus Disease ◽  
Disease Resistance Genes ◽  
Brown Spot ◽  
Viral Pathogen

Common bacterial blight (CBB), bacterial brown spot (BBS), and halo blight (HB), incited by the bacterial pathogens Xanthomonas campestris pv. phaseoli (Smith) Dye, Pseodomonas syringae pv. syringa, and Pseudomonas syringae pv. phaseolicola, respectively are important diseases of common bean. In addition three fungal pathogens, web blight (WB) Thanatephorus cucumeris, rust Uromyces appendiculatus, and white mold (WM) Sclerotinia sclerotiorum, are also destructive diseases attacking common bean. Bean common mosaic virus is also one of most major virus disease. Resistance genes (QTLs and major genes) to three bacterial (CBB, BBS, and HB), three fungal (WB, rust, and WM), and one viral pathogen (BCMV) were previously mapped in two common bean populations (BAC 6 × HT 7719 and Belneb RR-1 × A55). The objective of this research was to use an integrated RAPD map of the two populations to compare the positions and effect of resistance QTL in common bean. Results indicate that two chromosomal regions associated with QTL for CBB resistance mapped in both populations. The same chromosomal regions associated with QTL for disease resistance to different pathogens or same pathogens were detected in the integrated population.

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