Mapping QTLs for oil traits and eQTLs for oleosin genes in jatropha

Liu, Peng; Wang, C. M.; Li, Lei; Sun, Fei; Yue, Gen Hua

doi:10.1186/1471-2229-11-132

Cited by 69 publications

(53 citation statements)

References 28 publications

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“…Quantitative trait locus (QTL) analysis and gene functional studies have been performed to unravel the genetics of FA composition in Arabidopsis (Arabidopsis thaliana; Sanyal and Randal Linder, 2012), soybean (Glycine max; Wang et al, 2014b), jatropha (Jatropha curcas; Liu et al, 2011), and B. napus (Peng et al, 2010;Yan et al, 2011). In Arabidopsis, almost all genes and transcription factors involved in lipid metabolism and storage oils have been identified (Beisson et al, 2003;Le et al, 2010;Peng and Weselake, 2011).…”

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confidence: 99%

A Systems Genetics Approach Identifies Gene Regulatory Networks Associated with Fatty Acid Composition in Brassica rapa Seed

et al. 2015

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Fatty acids in seeds affect seed germination and seedling vigor, and fatty acid composition determines the quality of seed oil. In this study, quantitative trait locus (QTL) mapping of fatty acid and transcript abundance was integrated with gene network analysis to unravel the genetic regulation of seed fatty acid composition in a Brassica rapa doubled haploid population from a cross between a yellow sarson oil type and a black-seeded pak choi. The distribution of major QTLs for fatty acids showed a relationship with the fatty acid types: linkage group A03 for monounsaturated fatty acids, A04 for saturated fatty acids, and A05 for polyunsaturated fatty acids. Using a genetical genomics approach, expression quantitative trait locus (eQTL) hotspots were found at major fatty acid QTLs on linkage groups A03, A04, A05, and A09. An eQTL-guided gene coexpression network of lipid metabolism-related genes showed major hubs at the genes BrPLA2-ALPHA, BrWD-40, a number of seed storage protein genes, and the transcription factor BrMD-2, suggesting essential roles for these genes in lipid metabolism. Three subnetworks were extracted for the economically important and most abundant fatty acids erucic, oleic, linoleic, and linolenic acids. Network analysis, combined with comparison of the genome positions of cis-or trans-eQTLs with fatty acid QTLs, allowed the identification of candidate genes for genetic regulation of these fatty acids. The generated insights in the genetic architecture of fatty acid composition and the underlying complex gene regulatory networks in B. rapa seeds are discussed.

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A Systems Genetics Approach Identifies Gene Regulatory Networks Associated with Fatty Acid Composition in Brassica rapa Seed

et al. 2015

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“…Significant up-regulations of these genes, except for comp13078_c0 from Jatropha, were also confirmed by Kmeans Clustering method. These results implied directing roles of oleosins over TAGs with different fatty acid compositions, their preferences for specific unsaturated fatty acids (Liu et al, 2011) might result in the selective accumulation of certain TAGs.…”

Section: Discussionmentioning

confidence: 97%

Differential Gene Regulation of Lipid Synthesis in the Developing Seeds of Two Biodiesel Tree Species, Jatropha and Vernicia

Yang¹,

Huai-yun²,

Peng³

et al. 2016

IJAB

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The fatty acid compositions of Jatropha oil and Vernicia oil are strikingly different, which leads to a great difference in combustion performance, low temperature performance and oxidation stability. A comparative transcriptomic study was made in Vernicia and Jatropha, with a focus on the gene regulation of differential oil accumulation process. Transcriptome sequencing was conducted with seeds at the initial-and fast-stage of oil accumulation from both. More than 24 billion bases of cDNA sequence were obtained, with 49,583 and 45,414 high-quality unigenes identified for Vernicia and Jatropha seeds, respectively. Multiple comparative transcriptome approaches revealed a number of species-specific fatty acid desaturases (FAD2, FADX, FAH12 etc.) contributing to their differentiated fatty acid compositions in seeds of Vernicia and Jatropha. Meanwhile, the results suggested that DGAT majorly regulates TAG synthesis than PDAT in Vernicia seed, and PDAT may have more important role regulating TAG synthesis in Jatropha seed than in Vernicia seed. It was also implied that specific oleosins involving in oil bodies may have member bias and may affect lipid contents in seeds of Vernicia and Jatropha, as some of which were 30-50 fold up-regulated (with their RPKM values over 10,000 at fast-stage). Some important factors were identified and can differentially regulate lipid pathways in seeds of Vernicia and Jatropha.

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“…Lima QTL dideteksi mengendalikan tinggi tanaman, jumlah cabang per tanaman, jumlah bunga betina, dan jumlah biji per tanaman yang dikendalikan alel dari J. integerrima, serta dua QTL pengendali karakter hasil biji dikendalikan oleh alel dari J. curcas. Populasi pemetaan yang sama telah digunakan oleh Liu et al (2011) untuk memetakan 18 QTL pengendali karakter kadar dan kualitas minyak biji jarak pagar. Tiga QTL berbasis gen (qC18:1-1, qOilC-4, dan qOleIII-5) berturut-turut mengendalikan karakter konsentrasi asam oleat, kadar minyak pada biji, dan ekspresi gen asam oleat telah dipetakan pada genom jarak pagar berdasarkan informasi SNP berbasis gen yang dipetakan pada genom jarak pagar (Sun et al 2012).…”

Section: Peta Genetik Untuk Pemetaan Gen/qtl Karakter Unggulunclassified

Pendekatan Bioteknologi dan Genomika untuk Perbaikan Genetik Tanaman Jarak Pagar sebagai Penghasil Bahan Bakar Nabati

Tasma

2018

J. AgroBiogen

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Physic nut (Jatropha curcas L.) is an oil-bearing crop whose oil can be used as diesel substitution. This crop can be grown at suboptimal soils and thus attracts many people to explore its potential as a biorenewable energy crop. Many constrains, however, are faced by this crop. From plant material and cultivation aspects, not much information has yet been known regarding this crop. In addition, people still view physic nut as an incomplete domesticated crop as indicated by the fact that many J. curcas accessions of the world still have toxic in their seeds causing the protein-rich seeds can not directly be used as animal feed. J. curcas demonstrates continuous fruiting habit during its fruiting season and hence no uniform fruit maturity causing expensive harvesting cost. The female and male flower ratio is low causing lower seed productivity. J. curcas oil is relatively rich with poly unsaturated fatty acids that need to be decreased to improve diesel quality. Genomic knowledge to understand J. curcas genes and function is critical to manipulate J. curcas genetics systematically. Genetic transformation technology is potentially applied for better plant architecture, improvement of agronomically important characters, seed and oil yield, and quality traits. The objective of this manuscript was to review biotechnology and genomic approaches for genetic improvement of J. curcas plant materials. The biotechnological method application should expedite J. curcas breeding programs. With superior planting materials, the J. curcas should be able to be cultivated economically and resulting better J. curcas oil suitable for biodiesel industry.Keywords: Jatropha curcas, genomics, gene and QTL, genetic transformation, marker-assisted breeding. ABSTRAKJarak pagar (Jatropha curcas L.) merupakan tanaman penghasil minyak nabati yang dapat digunakan sebagai pengganti minyak diesel. Tanaman yang dapat tumbuh pada kondisi lahan kurang subur ini menarik minat banyak pihak untuk mengekplorasi potensinya sebagai tanaman sumber energi yang ramah lingkungan. Namun, masih banyak kendala yang dihadapi dalam pembudidayaannya supaya dapat diusahakan secara ekonomis. Dari aspek bahan tanaman dan budi daya, saat ini tanaman jarak pagar masih belum banyak diketahui. Bahkan, jarak pagar masih dianggap sebagai tanaman yang belum didomestikasikan secara penuh seperti ditunjukkan oleh fakta bahwa sebagian besar genotipe jarak pagar di dunia bijinya toksik sehingga ampas bijinya yang kaya protein tidak dapat langsung digunakan sebagai pakan ternak. Kematangan buah tanaman ini tidak serempak yang menyebabkan biaya panen tinggi. Rasio bunga betina dan bunga jantan yang rendah menyebabkan produktivitas bijinya rendah. Biji jarak pagar mengandung asam lemak poli tidak jenuh yang konsentrasinya perlu diturunkan untuk meningkatkan mutu minyak diesel. Pengetahuan genomika memungkinkan untuk mengetahui komposisi genom, komposisi dan fungsi gen, dan pemetaan genetik (gen/QTL) unggul jarak pagar. Pemahaman ini diperlukan agar genetika tanaman jarak...

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Mapping QTLs for oil traits and eQTLs for oleosin genes in jatropha

Cited by 69 publications

References 28 publications

A Systems Genetics Approach Identifies Gene Regulatory Networks Associated with Fatty Acid Composition in Brassica rapa Seed

A Systems Genetics Approach Identifies Gene Regulatory Networks Associated with Fatty Acid Composition in Brassica rapa Seed

Differential Gene Regulation of Lipid Synthesis in the Developing Seeds of Two Biodiesel Tree Species, Jatropha and Vernicia

Pendekatan Bioteknologi dan Genomika untuk Perbaikan Genetik Tanaman Jarak Pagar sebagai Penghasil Bahan Bakar Nabati

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