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Badad O, Pirro S, Lahlimi Q, Ghazal H. The Complete Genome Sequence of Verbascum thapsus (Scrophulariaceae, Lamiales), the Common Mullein. Biodivers Genomes 2023; 2023:10.56179/001c.73050. [PMID: 37009556 PMCID: PMC10062438 DOI: 10.56179/001c.73050] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 03/16/2023]
Abstract
Verbascum thapsus is a biennial plant native to Europe, northern Africa, and Asia and introduced in the Americas and Australia. We present the whole genome sequence of this species. Illumina paired-end reads were assembled by a de novo method followed by a finishing step. The raw and assembled data are publicly available via GenBank: Sequence Read Archive (SRR18183247) and assembled genome (JAOXOC000000000).
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Affiliation(s)
- Oussama Badad
- Laboratory of Plant and Microbial Biotechnology, Biodiversity and Environment, Faculty of Sciences, Mohammed V University in Rabat, 10000, Rabat, Morocco
| | - Stacy Pirro
- Biodiversity, Iridian Genomes, Mohammed VI University of Sciences and Health, Mohammed VI University of Sciences and Health, Casablanca, Morocco
| | - Qamar Lahlimi
- Laboratory of Plant and Microbial Biotechnology, Biodiversity and Environment, Faculty of Sciences, Mohammed V University in Rabat, 10000, Rabat, Morocco
| | - Hassan Ghazal
- Laboratory of Genomics, Bioinformatics and Digital Health, Mohammed VI University of Sciences and Health, Mohammed VI University of Sciences and Health, Casablanca, Morocco
- Laboratory of Genomics, Bioinformatics and Digital Health, Mohammed VI Center for Research and Innovation, Casablanca, Morocco
- National Center for Scientific and Technical Research (CNRST), Rabat, Morocco
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Zhou Z, Lakhssassi N, Knizia D, Cullen MA, El Baz A, Embaby MG, Liu S, Badad O, Vuong TD, AbuGhazaleh A, Nguyen HT, Meksem K. Genome-wide identification and analysis of soybean acyl-ACP thioesterase gene family reveals the role of GmFAT to improve fatty acid composition in soybean seed. Theor Appl Genet 2021; 134:3611-3623. [PMID: 34319424 DOI: 10.1007/s00122-021-03917-9] [Citation(s) in RCA: 16] [Impact Index Per Article: 5.3] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 04/12/2021] [Accepted: 07/13/2021] [Indexed: 06/13/2023]
Abstract
KEY MESSAGE Soybean acyl-ACP thioesterase gene family have been characterized; GmFATA1A mutants were discovered to confer high oleic acid, while GmFATB mutants presented low palmitic and high oleic acid seed content. Soybean oil stability and quality are primarily determined by the relative proportions of saturated versus unsaturated fatty acids. Commodity soybean typically contains 11% palmitic acid, as the primary saturated fatty acids. Reducing palmitic acid content is the principal approach to minimize the levels of saturated fatty acids in soybean. Though high palmitic acid enhances oxidative stability of soybean oil, it is negatively correlated with oil and oleic acid content and can cause coronary heart diseases for humans. For plants, acyl-acyl carrier protein (ACP) thioesterases (TEs) are a group of enzymes to hydrolyze acyl group and release free fatty acid from plastid. Among them, GmFATB1A has become the main target to genetically reduce the palmitic acid content in soybean. However, the role of members in soybean acyl-ACP thioesterase gene family is largely unknown. In this study, we characterized two classes of TEs, GmFATA, and GmFATB in soybean. We also denominated two GmFATA members and discovered six additional members that belong to GmFATB gene family through phylogenetic, syntenic, and in silico analysis. Using TILLING-by-Sequencing+, we identified an allelic series of mutations in five soybean acyl-ACP thioesterase genes, including GmFATA1A, GmFATB1A, GmFATB1B, GmFATB2A, and GmFATB2B. Additionally, we discovered mutations at GmFATA1A to confer high oleic acid (up to 34.5%) content, while mutations at GmFATB presented low palmitic acid (as low as 5.6%) and high oleic acid (up to 36.5%) phenotypes. The obtained soybean mutants with altered fatty acid content can be used in soybean breeding program for improving soybean oil composition traits.
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Affiliation(s)
- Zhou Zhou
- Department of Plant, Soil, and Agricultural Systems, Southern Illinois University, Carbondale, IL, 62901, USA
- Plant Science Department, McGill University, Montreal, QC, H9X 3V9, Canada
| | - Naoufal Lakhssassi
- Department of Plant, Soil, and Agricultural Systems, Southern Illinois University, Carbondale, IL, 62901, USA
| | - Dounya Knizia
- Department of Plant, Soil, and Agricultural Systems, Southern Illinois University, Carbondale, IL, 62901, USA
| | - Mallory A Cullen
- Department of Plant, Soil, and Agricultural Systems, Southern Illinois University, Carbondale, IL, 62901, USA
| | - Abdelhalim El Baz
- Department of Plant, Soil, and Agricultural Systems, Southern Illinois University, Carbondale, IL, 62901, USA
| | - Mohamed G Embaby
- Department of Animal Science, Food, and Nutrition, Southern Illinois University, Carbondale, IL, 62901, USA
| | - Shiming Liu
- Department of Plant, Soil, and Agricultural Systems, Southern Illinois University, Carbondale, IL, 62901, USA
| | - Oussama Badad
- Department of Plant, Soil, and Agricultural Systems, Southern Illinois University, Carbondale, IL, 62901, USA
| | - Tri D Vuong
- Division of Plant Sciences, University of Missouri, Columbia, MO, 65211, USA
| | - Amer AbuGhazaleh
- Department of Animal Science, Food, and Nutrition, Southern Illinois University, Carbondale, IL, 62901, USA
| | - Henry T Nguyen
- Division of Plant Sciences, University of Missouri, Columbia, MO, 65211, USA
| | - Khalid Meksem
- Department of Plant, Soil, and Agricultural Systems, Southern Illinois University, Carbondale, IL, 62901, USA.
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Badad O, Lakhssassi N, Zaid N, El Baze A, Zaid Y, Meksem J, Lightfoot DA, Tombuloglu H, Zaid EH, Unver T, Meksem K. Genome Wide MeDIP-Seq Profiling of Wild and Cultivated Olives Trees Suggests DNA Methylation Fingerprint on the Sensory Quality of Olive Oil. Plants (Basel) 2021; 10:plants10071405. [PMID: 34371608 PMCID: PMC8309279 DOI: 10.3390/plants10071405] [Citation(s) in RCA: 4] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Subscribe] [Scholar Register] [Received: 05/01/2021] [Revised: 07/03/2021] [Accepted: 07/05/2021] [Indexed: 12/31/2022]
Abstract
Secondary metabolites are particularly important to humans due to their pharmaceutical properties. Moreover, secondary metabolites are key compounds in climate change adaptation in long-living trees. Recently, it has been described that the domestication of Olea subspecies had no major selection signature on coding variants and was mainly related to changes in gene expression. In addition, the phenotypic plasticity in Olea subspecies was linked to the activation of transposable elements in the genes neighboring. Here, we investigated the imprint of DNA methylation in the unassigned fraction of the phenotypic plasticity of the Olea subspecies, using methylated DNA immuno-precipitation sequencing (MeDIP-seq) for a high-resolution genome-wide DNA methylation profiling of leaves and fruits during fruit development in wild and cultivated olives from Turkey. Notably, the methylation profiling showed a differential DNA methylation in secondary metabolism responsible for the sensory quality of olive oil. Here, we highlight for the first time the imprint of DNA methylation in modulating the activity of the Linoleate 9S lipoxygenase in the biosynthesis of volatile aromatic compounds. Unprecedently, the current study reveals the methylation status of the olive genome during fruit ripening.
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Affiliation(s)
- Oussama Badad
- Department of Plant, Soil and Agricultural Systems, Southern Illinois University, Carbondale, IL 62901, USA; (O.B.); (N.L.); (A.E.B.); (D.A.L.)
- Department of Biology, Faculty of Sciences, Mohammed V University, Rabat 10000, Morocco; (N.Z.); (Y.Z.); (E.H.Z.)
| | - Naoufal Lakhssassi
- Department of Plant, Soil and Agricultural Systems, Southern Illinois University, Carbondale, IL 62901, USA; (O.B.); (N.L.); (A.E.B.); (D.A.L.)
| | - Nabil Zaid
- Department of Biology, Faculty of Sciences, Mohammed V University, Rabat 10000, Morocco; (N.Z.); (Y.Z.); (E.H.Z.)
| | - Abdelhalim El Baze
- Department of Plant, Soil and Agricultural Systems, Southern Illinois University, Carbondale, IL 62901, USA; (O.B.); (N.L.); (A.E.B.); (D.A.L.)
| | - Younes Zaid
- Department of Biology, Faculty of Sciences, Mohammed V University, Rabat 10000, Morocco; (N.Z.); (Y.Z.); (E.H.Z.)
- Research Center, Abulcasis University of Health Sciences, Rabat 10000, Morocco
| | - Jonas Meksem
- Trinity College of Arts and Sciences, Duke University, Durham, NC 27708, USA;
| | - David A Lightfoot
- Department of Plant, Soil and Agricultural Systems, Southern Illinois University, Carbondale, IL 62901, USA; (O.B.); (N.L.); (A.E.B.); (D.A.L.)
| | - Huseyin Tombuloglu
- Department of Genetics Research, Institute for Research and Medical Consultations (IRMC), Imam Abdulrahman Bin Faisal University, P.O. Box 1982, Dammam 31441, Saudi Arabia;
| | - El Houcine Zaid
- Department of Biology, Faculty of Sciences, Mohammed V University, Rabat 10000, Morocco; (N.Z.); (Y.Z.); (E.H.Z.)
| | - Turgay Unver
- Ficus Biotechnology, Ostim OSB Mah, 100. Yil Blv, No:55, Yenimahalle, Ankara 06000, Turkey
- Correspondence: (T.U.); (K.M.)
| | - Khalid Meksem
- Department of Plant, Soil and Agricultural Systems, Southern Illinois University, Carbondale, IL 62901, USA; (O.B.); (N.L.); (A.E.B.); (D.A.L.)
- Correspondence: (T.U.); (K.M.)
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Lakhssassi N, Lopes-Caitar VS, Knizia D, Cullen MA, Badad O, El Baze A, Zhou Z, Embaby MG, Meksem J, Lakhssassi A, Chen P, AbuGhazaleh A, Vuong TD, Nguyen HT, Hewezi T, Meksem K. TILLING-by-Sequencing + Reveals the Role of Novel Fatty Acid Desaturases (GmFAD2-2s) in Increasing Soybean Seed Oleic Acid Content. Cells 2021; 10:1245. [PMID: 34069320 PMCID: PMC8158723 DOI: 10.3390/cells10051245] [Citation(s) in RCA: 14] [Impact Index Per Article: 4.7] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/26/2021] [Revised: 05/15/2021] [Accepted: 05/16/2021] [Indexed: 11/17/2022] Open
Abstract
Soybean is the second largest source of oil worldwide. Developing soybean varieties with high levels of oleic acid is a primary goal of the soybean breeders and industry. Edible oils containing high level of oleic acid and low level of linoleic acid are considered with higher oxidative stability and can be used as a natural antioxidant in food stability. All developed high oleic acid soybeans carry two alleles; GmFAD2-1A and GmFAD2-1B. However, when planted in cold soil, a possible reduction in seed germination was reported when high seed oleic acid derived from GmFAD2-1 alleles were used. Besides the soybean fatty acid desaturase (GmFAD2-1) subfamily, the GmFAD2-2 subfamily is composed of five members, including GmFAD2-2A, GmFAD2-2B, GmFAD2-2C, GmFAD2-2D, and GmFAD2-2E. Segmental duplication of GmFAD2-1A/GmFAD2-1B, GmFAD2-2A/GmFAD2-2C, GmFAD2-2A/GmFAD2-2D, and GmFAD2-2D/GmFAD2-2C have occurred about 10.65, 27.04, 100.81, and 106.55 Mya, respectively. Using TILLING-by-Sequencing+ technology, we successfully identified 12, 8, 10, 9, and 19 EMS mutants at the GmFAD2-2A, GmFAD2-2B, GmFAD2-2C, GmFAD2-2D, and GmFAD2-2E genes, respectively. Functional analyses of newly identified mutants revealed unprecedented role of the five GmFAD2-2A, GmFAD2-2B, GmFAD2-2C, GmFAD2-2D, and GmFAD2-2E members in controlling the seed oleic acid content. Most importantly, unlike GmFAD2-1 members, subcellular localization revealed that members of the GmFAD2-2 subfamily showed a cytoplasmic localization, which may suggest the presence of an alternative fatty acid desaturase pathway in soybean for converting oleic acid content without substantially altering the traditional plastidial/ER fatty acid production.
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Affiliation(s)
- Naoufal Lakhssassi
- Department of Plant, Soil and Agricultural Systems, Southern Illinois University, Carbondale, IL 62901, USA; (N.L.); (D.K.); (M.A.C.); (O.B.); (A.E.B.); (Z.Z.)
| | | | - Dounya Knizia
- Department of Plant, Soil and Agricultural Systems, Southern Illinois University, Carbondale, IL 62901, USA; (N.L.); (D.K.); (M.A.C.); (O.B.); (A.E.B.); (Z.Z.)
| | - Mallory A. Cullen
- Department of Plant, Soil and Agricultural Systems, Southern Illinois University, Carbondale, IL 62901, USA; (N.L.); (D.K.); (M.A.C.); (O.B.); (A.E.B.); (Z.Z.)
| | - Oussama Badad
- Department of Plant, Soil and Agricultural Systems, Southern Illinois University, Carbondale, IL 62901, USA; (N.L.); (D.K.); (M.A.C.); (O.B.); (A.E.B.); (Z.Z.)
| | - Abdelhalim El Baze
- Department of Plant, Soil and Agricultural Systems, Southern Illinois University, Carbondale, IL 62901, USA; (N.L.); (D.K.); (M.A.C.); (O.B.); (A.E.B.); (Z.Z.)
| | - Zhou Zhou
- Department of Plant, Soil and Agricultural Systems, Southern Illinois University, Carbondale, IL 62901, USA; (N.L.); (D.K.); (M.A.C.); (O.B.); (A.E.B.); (Z.Z.)
| | - Mohamed G. Embaby
- Department of Animal Science, Food, and Nutrition, Southern Illinois University, Carbondale, IL 62901, USA; (M.G.E.); (A.A.)
| | - Jonas Meksem
- Trinity College of Arts and Sciences, Duke University, Durham, NC 27708, USA;
| | - Aicha Lakhssassi
- Faculty of Sciences and Technologies, University of Lorraine, 54506 Nancy, France;
| | - Pengyin Chen
- Division of Plant Sciences, University of Missouri, Columbia, MO 65211, USA; (P.C.); (T.D.V.); (H.T.N.)
| | - Amer AbuGhazaleh
- Department of Animal Science, Food, and Nutrition, Southern Illinois University, Carbondale, IL 62901, USA; (M.G.E.); (A.A.)
| | - Tri D. Vuong
- Division of Plant Sciences, University of Missouri, Columbia, MO 65211, USA; (P.C.); (T.D.V.); (H.T.N.)
| | - Henry T. Nguyen
- Division of Plant Sciences, University of Missouri, Columbia, MO 65211, USA; (P.C.); (T.D.V.); (H.T.N.)
| | - Tarek Hewezi
- Department of Plant Sciences, University of Tennessee, Knoxville, TN 37996, USA; (V.S.L.-C.); (T.H.)
| | - Khalid Meksem
- Department of Plant, Soil and Agricultural Systems, Southern Illinois University, Carbondale, IL 62901, USA; (N.L.); (D.K.); (M.A.C.); (O.B.); (A.E.B.); (Z.Z.)
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Lakhssassi N, Zhou Z, Cullen MA, Badad O, El Baze A, Chetto O, Embaby MG, Knizia D, Liu S, Neves LG, Meksem K. TILLING-by-Sequencing + to Decipher Oil Biosynthesis Pathway in Soybeans: A New and Effective Platform for High-Throughput Gene Functional Analysis. Int J Mol Sci 2021; 22:4219. [PMID: 33921707 PMCID: PMC8073088 DOI: 10.3390/ijms22084219] [Citation(s) in RCA: 4] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/21/2021] [Revised: 04/08/2021] [Accepted: 04/13/2021] [Indexed: 12/25/2022] Open
Abstract
Reverse genetic approaches have been widely applied to study gene function in crop species; however, these techniques, including gel-based TILLING, present low efficiency to characterize genes in soybeans due to genome complexity, gene duplication, and the presence of multiple gene family members that share high homology in their DNA sequence. Chemical mutagenesis emerges as a genetically modified-free strategy to produce large-scale soybean mutants for economically important traits improvement. The current study uses an optimized high-throughput TILLING by target capture sequencing technology, or TILLING-by-Sequencing+ (TbyS+), coupled with universal bioinformatic tools to identify population-wide mutations in soybeans. Four ethyl methanesulfonate mutagenized populations (4032 mutant families) have been screened for the presence of induced mutations in targeted genes. The mutation types and effects have been characterized for a total of 138 soybean genes involved in soybean seed composition, disease resistance, and many other quality traits. To test the efficiency of TbyS+ in complex genomes, we used soybeans as a model with a focus on three desaturase gene families, GmSACPD, GmFAD2, and GmFAD3, that are involved in the soybean fatty acid biosynthesis pathway. We successfully isolated mutants from all the six gene family members. Unsurprisingly, most of the characterized mutants showed significant changes either in their stearic, oleic, or linolenic acids. By using TbyS+, we discovered novel sources of soybean oil traits, including high saturated and monosaturated fatty acids in addition to low polyunsaturated fatty acid contents. This technology provides an unprecedented platform for highly effective screening of polyploid mutant populations and functional gene analysis. The obtained soybean mutants from this study can be used in subsequent soybean breeding programs for improved oil composition traits.
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Affiliation(s)
- Naoufal Lakhssassi
- Department of Plant, Soil, and Agricultural Systems, Southern Illinois University, Carbondale, IL 62901, USA; (N.L.); (Z.Z.); (M.A.C.); (O.B.); (A.E.B.); (O.C.); (D.K.); (S.L.)
| | - Zhou Zhou
- Department of Plant, Soil, and Agricultural Systems, Southern Illinois University, Carbondale, IL 62901, USA; (N.L.); (Z.Z.); (M.A.C.); (O.B.); (A.E.B.); (O.C.); (D.K.); (S.L.)
| | - Mallory A. Cullen
- Department of Plant, Soil, and Agricultural Systems, Southern Illinois University, Carbondale, IL 62901, USA; (N.L.); (Z.Z.); (M.A.C.); (O.B.); (A.E.B.); (O.C.); (D.K.); (S.L.)
| | - Oussama Badad
- Department of Plant, Soil, and Agricultural Systems, Southern Illinois University, Carbondale, IL 62901, USA; (N.L.); (Z.Z.); (M.A.C.); (O.B.); (A.E.B.); (O.C.); (D.K.); (S.L.)
| | - Abdelhalim El Baze
- Department of Plant, Soil, and Agricultural Systems, Southern Illinois University, Carbondale, IL 62901, USA; (N.L.); (Z.Z.); (M.A.C.); (O.B.); (A.E.B.); (O.C.); (D.K.); (S.L.)
| | - Oumaima Chetto
- Department of Plant, Soil, and Agricultural Systems, Southern Illinois University, Carbondale, IL 62901, USA; (N.L.); (Z.Z.); (M.A.C.); (O.B.); (A.E.B.); (O.C.); (D.K.); (S.L.)
| | - Mohamed G. Embaby
- Department of Animal Science, Food, and Nutrition, Southern Illinois University, Carbondale, IL 62901, USA;
| | - Dounya Knizia
- Department of Plant, Soil, and Agricultural Systems, Southern Illinois University, Carbondale, IL 62901, USA; (N.L.); (Z.Z.); (M.A.C.); (O.B.); (A.E.B.); (O.C.); (D.K.); (S.L.)
| | - Shiming Liu
- Department of Plant, Soil, and Agricultural Systems, Southern Illinois University, Carbondale, IL 62901, USA; (N.L.); (Z.Z.); (M.A.C.); (O.B.); (A.E.B.); (O.C.); (D.K.); (S.L.)
| | | | - Khalid Meksem
- Department of Plant, Soil, and Agricultural Systems, Southern Illinois University, Carbondale, IL 62901, USA; (N.L.); (Z.Z.); (M.A.C.); (O.B.); (A.E.B.); (O.C.); (D.K.); (S.L.)
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Allaoui A, Khawaja AA, Badad O, Naciri M, Lordkipanidzé M, Guessous F, Zaid Y. Platelet Function in Viral Immunity and SARS-CoV-2 Infection. Semin Thromb Hemost 2021; 47:419-426. [PMID: 33851385 DOI: 10.1055/s-0041-1726033] [Citation(s) in RCA: 5] [Impact Index Per Article: 1.7] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/15/2022]
Abstract
Platelets, as nonnucleated blood components, are classically recognized for their pivotal role in hemostasis. In recent years, however, accumulating evidence points to a nonhemostatic role for platelets, as active participants in the inflammatory and immune responses to microbial organisms in infectious diseases. This stems from the ability of activated platelets to secrete a plethora of immunomodulatory cytokines and chemokines, as well as directly interplaying with viral receptors. While much attention has been given to the role of the cytokine storm in the severity of the coronavirus disease 2019 (COVID-19), less is known about the contribution of platelets to severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2) infection. Here, we give a brief overview on the platelet contribution to antiviral immunity and response during SARS-CoV-2 infection.
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Affiliation(s)
- Afaf Allaoui
- Department of Biology, Faculty of Sciences, Mohammed V University, Rabat, Morocco
| | - Akif A Khawaja
- National Heart and Lung Institute, Imperial College London, London, United Kingdom
| | - Oussama Badad
- Department of Biology, Faculty of Sciences, Mohammed V University, Rabat, Morocco.,Department of Plant, Southern Illinois University, Carbondale, Illinois
| | - Mariam Naciri
- Department of Biology, Faculty of Sciences, Mohammed V University, Rabat, Morocco
| | - Marie Lordkipanidzé
- Research Center, Montreal Heart Institute, Montréal, Quebec, Canada.,Faculty of pharmacy, Université de Montréal, Montréal, Québec, Canada
| | - Fadila Guessous
- Microbiology, Immunology and Cancer Biology, School of Medicine, University of Virginia, Charlottesville, Virginia.,Department of Biological Sciences, Faculty of Medicine, Mohammed VI University of Health Sciences, Casablanca, Morocco
| | - Younes Zaid
- Department of Biology, Faculty of Sciences, Mohammed V University, Rabat, Morocco.,Research Center of Abulcasis University of Health Sciences, Cheikh Zaïd Hospital, Rabat, Morocco
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Lakhssassi N, Zhou Z, Liu S, Piya S, Cullen MA, El Baze A, Knizia D, Patil GB, Badad O, Embaby MG, Meksem J, Lakhssassi A, AbuGhazaleh A, Hewezi T, Meksem K. Soybean TILLING-by-Sequencing+ reveals the role of novel GmSACPD members in unsaturated fatty acid biosynthesis while maintaining healthy nodules. J Exp Bot 2020; 71:6969-6987. [PMID: 32898219 DOI: 10.1093/jxb/eraa402] [Citation(s) in RCA: 16] [Impact Index Per Article: 4.0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 05/28/2020] [Accepted: 08/27/2020] [Indexed: 05/07/2023]
Abstract
Developing soybean lines with high levels of stearic acid is a primary goal of the soybean industry. Most high-stearic-acid soybeans carry different GmSACPD-C mutated alleles. However, due to the dual role of GmSACPD-C in seeds and nodule development, all derived deleterious GmSACPD-C mutant alleles are of extremely poor agronomic value because of defective nodulation. The soybean stearoyl-acyl carrier protein desaturase (GmSACPD) gene family is composed of five members. Comparative genomics analysis indicated that SACPD genes were duplicated and derived from a common ancestor that is still present in chlorophytic algae. Synteny analysis showed the presence of segment duplications between GmSACPD-A/GmSACPD-B, and GmSACPD-C/GmSACPD-D. GmSACPD-E was not contained in any duplicated segment and may be the result of tandem duplication. We developed a TILLING by Target Capture Sequencing (Tilling-by-Sequencing+) technology, a versatile extension of the conventional TILLING by sequencing, and successfully identified 12, 14, and 18 ethyl methanesulfonate mutants at the GmSACPD-A, GmSACPD-B, and GmSACPD-D genes, respectively. Functional analysis of all identified mutants revealed an unprecedented role of GmSACPD-A, GmSACPD-B, and GmSACPD-D in unsaturated fatty acid biosynthesis without affecting nodule development and structure. This discovery will positively impact the development of high-stearic-acid lines to enhance soybean nutritional value without potential developmental tradeoffs.
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Affiliation(s)
- Naoufal Lakhssassi
- Department of Plant, Soil and Agricultural Systems, Southern Illinois University, Carbondale, IL, USA
| | - Zhou Zhou
- Department of Plant, Soil and Agricultural Systems, Southern Illinois University, Carbondale, IL, USA
| | - Shiming Liu
- Department of Plant, Soil and Agricultural Systems, Southern Illinois University, Carbondale, IL, USA
| | - Sarbottam Piya
- Department of Plant Sciences, University of Tennessee, Knoxville, TN, USA
| | - Mallory A Cullen
- Department of Plant, Soil and Agricultural Systems, Southern Illinois University, Carbondale, IL, USA
| | - Abdelhalim El Baze
- Department of Plant, Soil and Agricultural Systems, Southern Illinois University, Carbondale, IL, USA
| | - Dounya Knizia
- Department of Plant, Soil and Agricultural Systems, Southern Illinois University, Carbondale, IL, USA
| | - Gunvant B Patil
- Institute for Genomics of Crop Abiotic Stress Tolerance, Department of Plant and Soil Science, Texas Tech University, Lubbock, TX, USA
| | - Oussama Badad
- Department of Plant, Soil and Agricultural Systems, Southern Illinois University, Carbondale, IL, USA
| | - Mohamed G Embaby
- Department of Animal Science, Food, and Nutrition, Southern Illinois University, Carbondale, IL, USA
| | - Jonas Meksem
- Trinity College of Arts and Sciences, Duke University, Durham, NC, USA
| | - Aicha Lakhssassi
- Faculty of Sciences and Technologies, University of Lorraine, Nancy, France
| | - Amer AbuGhazaleh
- Department of Animal Science, Food, and Nutrition, Southern Illinois University, Carbondale, IL, USA
| | - Tarek Hewezi
- Department of Plant Sciences, University of Tennessee, Knoxville, TN, USA
| | - Khalid Meksem
- Department of Plant, Soil and Agricultural Systems, Southern Illinois University, Carbondale, IL, USA
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8
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Khayi S, Azza NE, Gaboun F, Pirro S, Badad O, Claros MG, Lightfoot DA, Unver T, Chaouni B, Merrouch R, Rahim B, Essayeh S, Ganoudi M, Abdelwahd R, Diria G, Mdarhi MA, Labhilili M, Iraqi D, Mouhaddab J, Sedrati H, Memari M, Hamamouch N, Alché JDD, Boukhatem N, Mrabet R, Dahan R, Legssyer A, Khalfaoui M, Badraoui M, Van de Peer Y, Tatusova T, El Mousadik A, Mentag R, Ghazal H. First draft genome assembly of the Argane tree ( Argania spinosa). F1000Res 2018; 7:1310. [PMID: 32509273 PMCID: PMC7238458 DOI: 10.12688/f1000research.15719.2] [Citation(s) in RCA: 5] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Submit a Manuscript] [Subscribe] [Scholar Register] [Accepted: 04/22/2020] [Indexed: 11/20/2022] Open
Abstract
Background: The Argane tree ( Argania spinosa L. Skeels) is an endemic tree of mid-western Morocco that plays an important socioeconomic and ecologic role for a dense human population in an arid zone. Several studies confirmed the importance of this species as a food and feed source and as a resource for both pharmaceutical and cosmetic compounds. Unfortunately, the argane tree ecosystem is facing significant threats from environmental changes (global warming, over-population) and over-exploitation. Limited research has been conducted, however, on argane tree genetics and genomics, which hinders its conservation and genetic improvement. Methods: Here, we present a draft genome assembly of A. spinosa. A reliable reference genome of A. spinosa was created using a hybrid de novo assembly approach combining short and long sequencing reads. Results: In total, 144 Gb Illumina HiSeq reads and 7.6 Gb PacBio reads were produced and assembled. The final draft genome comprises 75 327 scaffolds totaling 671 Mb with an N50 of 49 916 kb. The draft assembly is close to the genome size estimated by k-mers distribution and covers 89% of complete and 4.3 % of partial Arabidopsis orthologous groups in BUSCO. Conclusion: The A. spinosa genome will be useful for assessing biodiversity leading to efficient conservation of this endangered endemic tree. Furthermore, the genome may enable genome-assisted cultivar breeding, and provide a better understanding of important metabolic pathways and their underlying genes for both cosmetic and pharmacological.
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Affiliation(s)
- Slimane Khayi
- Biotechnology Unit, National Institute of Agricultural Research (INRA), Rabat, Morocco, Morocco
| | - Nour Elhouda Azza
- Laboratory of Biotechnology and Valorization of Natural Resources (LBVRN), Faculty of Sciences, University Ibn Zohr, Agadir, Morocco.,Laboratory of Physiology, Genetics & Ethnopharmacology (LPGE), Faculty of Sciences, University Mohamed Premier, Oujda, Morocco
| | - Fatima Gaboun
- Biotechnology Unit, National Institute of Agricultural Research (INRA), Rabat, Morocco, Morocco
| | - Stacy Pirro
- Iridian Genomes, Inc., Bethesda, MD, 20817, USA
| | - Oussama Badad
- Laboratory of Physiology, Genetics & Ethnopharmacology (LPGE), Faculty of Sciences, University Mohamed Premier, Oujda, Morocco.,Department of Plant, Soil and Agricultural Systems, Southern Illinois University, Carbondale, IL, 62901, USA.,Laboratory of Plant Physiology, Faculty of Sciences, University Mohamed V in Rabat, Rabat, 10000, Morocco
| | - M Gonzalo Claros
- Department of Molecular Biology and Biochemistry, and Plataforma Andaluza de Bioinformática, University of Malaga, Malaga, Spain
| | - David A Lightfoot
- Department of Plant, Soil and Agricultural Systems, Southern Illinois University, Carbondale, IL, 62901, USA
| | - Turgay Unver
- International Biomedicine and Genome Institute (iBG-izmir), Dokuz Eylül University, Current address: Egitim Mah. Ekrem Guer Sok. 26/3 Balcova, Izmir, Turkey
| | - Bouchra Chaouni
- Laboratory of Physiology, Genetics & Ethnopharmacology (LPGE), Faculty of Sciences, University Mohamed Premier, Oujda, Morocco.,Laboratory of Plant Physiology, Faculty of Sciences, University Mohamed V in Rabat, Rabat, 10000, Morocco
| | - Redouane Merrouch
- National Center for Scientific and Technological Research (CNRST), Rabat, Morocco
| | - Bouchra Rahim
- National Center for Scientific and Technological Research (CNRST), Rabat, Morocco
| | - Soumaya Essayeh
- Polydisciplinary Faculty of Nador, University Mohamed Premier, Nador, Morocco
| | - Matika Ganoudi
- Biotechnology Unit, National Institute of Agricultural Research (INRA), Rabat, Morocco, Morocco
| | - Rabha Abdelwahd
- Biotechnology Unit, National Institute of Agricultural Research (INRA), Rabat, Morocco, Morocco
| | - Ghizlane Diria
- Biotechnology Unit, National Institute of Agricultural Research (INRA), Rabat, Morocco, Morocco
| | - Meriem Alaoui Mdarhi
- Biotechnology Unit, National Institute of Agricultural Research (INRA), Rabat, Morocco, Morocco
| | - Mustapha Labhilili
- Biotechnology Unit, National Institute of Agricultural Research (INRA), Rabat, Morocco, Morocco
| | - Driss Iraqi
- Biotechnology Unit, National Institute of Agricultural Research (INRA), Rabat, Morocco, Morocco
| | - Jamila Mouhaddab
- Laboratory of Biotechnology and Valorization of Natural Resources (LBVRN), Faculty of Sciences, University Ibn Zohr, Agadir, Morocco
| | - Hayat Sedrati
- National School of Computer Sciences & Systems Analysis, University Mohammed V in Rabat, Rabat, Morocco
| | - Majid Memari
- Research Computing and Cyber infrastructure, Computer Science Department, Southern Illinois University, Carbondale, IL, 62901, USA
| | - Noureddine Hamamouch
- Polydisciplinary Faculty, Sultan Moulay Slimane University, Beni-Mellal, Morocco
| | - Juan de Dios Alché
- Estación Experimental del Zaidín, Consejo Superior de Investigaciones Científicas (CSIC), Granada, Spain
| | - Noureddine Boukhatem
- Laboratory of Physiology, Genetics & Ethnopharmacology (LPGE), Faculty of Sciences, University Mohamed Premier, Oujda, Morocco
| | - Rachid Mrabet
- Biotechnology Unit, National Institute of Agricultural Research (INRA), Rabat, Morocco, Morocco
| | - Rachid Dahan
- Biotechnology Unit, National Institute of Agricultural Research (INRA), Rabat, Morocco, Morocco
| | - Adelkhaleq Legssyer
- Laboratory of Physiology, Genetics & Ethnopharmacology (LPGE), Faculty of Sciences, University Mohamed Premier, Oujda, Morocco
| | - Mohamed Khalfaoui
- National Center for Scientific and Technological Research (CNRST), Rabat, Morocco
| | - Mohamed Badraoui
- Biotechnology Unit, National Institute of Agricultural Research (INRA), Rabat, Morocco, Morocco
| | - Yves Van de Peer
- Department of Plant Biotechnology and Bioinformatics, Ghent University, Ghent, B-9052 Ghent, Belgium, Belgium.,VIB Center for Plant Systems Biology, Technologiepark 927, Ghent, B-9052, Belgium.,Department of Genetics, Genomics Research Institute, University of Pretoria, Pretoria, 0028, South Africa
| | - Tatiana Tatusova
- National Center for Biotechnology Information, National Institutes of Health, Bethesda, MD, 20817, USA
| | - Abdelhamid El Mousadik
- Laboratory of Biotechnology and Valorization of Natural Resources (LBVRN), Faculty of Sciences, University Ibn Zohr, Agadir, Morocco
| | - Rachid Mentag
- Biotechnology Unit, National Institute of Agricultural Research (INRA), Rabat, Morocco, Morocco
| | - Hassan Ghazal
- Laboratory of Biotechnology and Valorization of Natural Resources (LBVRN), Faculty of Sciences, University Ibn Zohr, Agadir, Morocco.,Laboratory of Physiology, Genetics & Ethnopharmacology (LPGE), Faculty of Sciences, University Mohamed Premier, Oujda, Morocco.,Iridian Genomes, Inc., Bethesda, MD, 20817, USA.,National Center for Scientific and Technological Research (CNRST), Rabat, Morocco
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9
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Khayi S, Azza NE, Gaboun F, Pirro S, Badad O, Claros MG, Lightfoot DA, Unver T, Chaouni B, Merrouch R, Rahim B, Essayeh S, Ganoudi M, Abdelwahd R, Diria G, Mdarhi MA, Labhilili M, Iraqi D, Mouhaddab J, Sedrati H, Memari M, Hamamouch N, Alché JDD, Boukhatem N, Mrabet R, Dahan R, Legssyer A, Khalfaoui M, Badraoui M, Van de Peer Y, Tatusova T, El Mousadik A, Mentag R, Ghazal H. First draft genome assembly of the Argane tree ( Argania spinosa). F1000Res 2018; 7:1310. [PMID: 32509273 DOI: 10.12688/f1000research.15719.1] [Citation(s) in RCA: 5] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Submit a Manuscript] [Subscribe] [Scholar Register] [Accepted: 08/02/2018] [Indexed: 11/20/2022] Open
Abstract
Background: The Argane tree ( Argania spinosa L. Skeels) is an endemic tree of mid-western Morocco that plays an important socioeconomic and ecologic role for a dense human population in an arid zone. Several studies confirmed the importance of this species as a food and feed source and as a resource for both pharmaceutical and cosmetic compounds. Unfortunately, the argane tree ecosystem is facing significant threats from environmental changes (global warming, over-population) and over-exploitation. Limited research has been conducted, however, on argane tree genetics and genomics, which hinders its conservation and genetic improvement. Methods: Here, we present a draft genome assembly of A. spinosa. A reliable reference genome of A. spinosa was created using a hybrid de novo assembly approach combining short and long sequencing reads. Results: In total, 144 Gb Illumina HiSeq reads and 7.6 Gb PacBio reads were produced and assembled. The final draft genome comprises 75 327 scaffolds totaling 671 Mb with an N50 of 49 916 kb. The draft assembly is close to the genome size estimated by k-mers distribution and covers 89% of complete and 4.3 % of partial Arabidopsis orthologous groups in BUSCO. Conclusion: The A. spinosa genome will be useful for assessing biodiversity leading to efficient conservation of this endangered endemic tree. Furthermore, the genome may enable genome-assisted cultivar breeding, and provide a better understanding of important metabolic pathways and their underlying genes for both cosmetic and pharmacological.
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Affiliation(s)
- Slimane Khayi
- Biotechnology Unit, National Institute of Agricultural Research (INRA), Rabat, Morocco, Morocco
| | - Nour Elhouda Azza
- Laboratory of Biotechnology and Valorization of Natural Resources (LBVRN), Faculty of Sciences, University Ibn Zohr, Agadir, Morocco.,Laboratory of Physiology, Genetics & Ethnopharmacology (LPGE), Faculty of Sciences, University Mohamed Premier, Oujda, Morocco
| | - Fatima Gaboun
- Biotechnology Unit, National Institute of Agricultural Research (INRA), Rabat, Morocco, Morocco
| | - Stacy Pirro
- Iridian Genomes, Inc., Bethesda, MD, 20817, USA
| | - Oussama Badad
- Laboratory of Physiology, Genetics & Ethnopharmacology (LPGE), Faculty of Sciences, University Mohamed Premier, Oujda, Morocco.,Department of Plant, Soil and Agricultural Systems, Southern Illinois University, Carbondale, IL, 62901, USA.,Laboratory of Plant Physiology, Faculty of Sciences, University Mohamed V in Rabat, Rabat, 10000, Morocco
| | - M Gonzalo Claros
- Department of Molecular Biology and Biochemistry, and Plataforma Andaluza de Bioinformática, University of Malaga, Malaga, Spain
| | - David A Lightfoot
- Department of Plant, Soil and Agricultural Systems, Southern Illinois University, Carbondale, IL, 62901, USA
| | - Turgay Unver
- International Biomedicine and Genome Institute (iBG-izmir), Dokuz Eylül University, Current address: Egitim Mah. Ekrem Guer Sok. 26/3 Balcova, Izmir, Turkey
| | - Bouchra Chaouni
- Laboratory of Physiology, Genetics & Ethnopharmacology (LPGE), Faculty of Sciences, University Mohamed Premier, Oujda, Morocco.,Laboratory of Plant Physiology, Faculty of Sciences, University Mohamed V in Rabat, Rabat, 10000, Morocco
| | - Redouane Merrouch
- National Center for Scientific and Technological Research (CNRST), Rabat, Morocco
| | - Bouchra Rahim
- National Center for Scientific and Technological Research (CNRST), Rabat, Morocco
| | - Soumaya Essayeh
- Polydisciplinary Faculty of Nador, University Mohamed Premier, Nador, Morocco
| | - Matika Ganoudi
- Biotechnology Unit, National Institute of Agricultural Research (INRA), Rabat, Morocco, Morocco
| | - Rabha Abdelwahd
- Biotechnology Unit, National Institute of Agricultural Research (INRA), Rabat, Morocco, Morocco
| | - Ghizlane Diria
- Biotechnology Unit, National Institute of Agricultural Research (INRA), Rabat, Morocco, Morocco
| | - Meriem Alaoui Mdarhi
- Biotechnology Unit, National Institute of Agricultural Research (INRA), Rabat, Morocco, Morocco
| | - Mustapha Labhilili
- Biotechnology Unit, National Institute of Agricultural Research (INRA), Rabat, Morocco, Morocco
| | - Driss Iraqi
- Biotechnology Unit, National Institute of Agricultural Research (INRA), Rabat, Morocco, Morocco
| | - Jamila Mouhaddab
- Laboratory of Biotechnology and Valorization of Natural Resources (LBVRN), Faculty of Sciences, University Ibn Zohr, Agadir, Morocco
| | - Hayat Sedrati
- National School of Computer Sciences & Systems Analysis, University Mohammed V in Rabat, Rabat, Morocco
| | - Majid Memari
- Research Computing and Cyber infrastructure, Computer Science Department, Southern Illinois University, Carbondale, IL, 62901, USA
| | - Noureddine Hamamouch
- Polydisciplinary Faculty, Sultan Moulay Slimane University, Beni-Mellal, Morocco
| | - Juan de Dios Alché
- Estación Experimental del Zaidín, Consejo Superior de Investigaciones Científicas (CSIC), Granada, Spain
| | - Noureddine Boukhatem
- Laboratory of Physiology, Genetics & Ethnopharmacology (LPGE), Faculty of Sciences, University Mohamed Premier, Oujda, Morocco
| | - Rachid Mrabet
- Biotechnology Unit, National Institute of Agricultural Research (INRA), Rabat, Morocco, Morocco
| | - Rachid Dahan
- Biotechnology Unit, National Institute of Agricultural Research (INRA), Rabat, Morocco, Morocco
| | - Adelkhaleq Legssyer
- Laboratory of Physiology, Genetics & Ethnopharmacology (LPGE), Faculty of Sciences, University Mohamed Premier, Oujda, Morocco
| | - Mohamed Khalfaoui
- National Center for Scientific and Technological Research (CNRST), Rabat, Morocco
| | - Mohamed Badraoui
- Biotechnology Unit, National Institute of Agricultural Research (INRA), Rabat, Morocco, Morocco
| | - Yves Van de Peer
- Department of Plant Biotechnology and Bioinformatics, Ghent University, Ghent, B-9052 Ghent, Belgium, Belgium.,VIB Center for Plant Systems Biology, Technologiepark 927, Ghent, B-9052, Belgium.,Department of Genetics, Genomics Research Institute, University of Pretoria, Pretoria, 0028, South Africa
| | - Tatiana Tatusova
- National Center for Biotechnology Information, National Institutes of Health, Bethesda, MD, 20817, USA
| | - Abdelhamid El Mousadik
- Laboratory of Biotechnology and Valorization of Natural Resources (LBVRN), Faculty of Sciences, University Ibn Zohr, Agadir, Morocco
| | - Rachid Mentag
- Biotechnology Unit, National Institute of Agricultural Research (INRA), Rabat, Morocco, Morocco
| | - Hassan Ghazal
- Laboratory of Biotechnology and Valorization of Natural Resources (LBVRN), Faculty of Sciences, University Ibn Zohr, Agadir, Morocco.,Laboratory of Physiology, Genetics & Ethnopharmacology (LPGE), Faculty of Sciences, University Mohamed Premier, Oujda, Morocco.,Iridian Genomes, Inc., Bethesda, MD, 20817, USA.,National Center for Scientific and Technological Research (CNRST), Rabat, Morocco
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10
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Unver T, Wu Z, Sterck L, Turktas M, Lohaus R, Li Z, Yang M, He L, Deng T, Escalante FJ, Llorens C, Roig FJ, Parmaksiz I, Dundar E, Xie F, Zhang B, Ipek A, Uranbey S, Erayman M, Ilhan E, Badad O, Ghazal H, Lightfoot DA, Kasarla P, Colantonio V, Tombuloglu H, Hernandez P, Mete N, Cetin O, Van Montagu M, Yang H, Gao Q, Dorado G, Van de Peer Y. Genome of wild olive and the evolution of oil biosynthesis. Proc Natl Acad Sci U S A 2017; 114:E9413-E9422. [PMID: 29078332 PMCID: PMC5676908 DOI: 10.1073/pnas.1708621114] [Citation(s) in RCA: 152] [Impact Index Per Article: 21.7] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/18/2022] Open
Abstract
Here we present the genome sequence and annotation of the wild olive tree (Olea europaea var. sylvestris), called oleaster, which is considered an ancestor of cultivated olive trees. More than 50,000 protein-coding genes were predicted, a majority of which could be anchored to 23 pseudochromosomes obtained through a newly constructed genetic map. The oleaster genome contains signatures of two Oleaceae lineage-specific paleopolyploidy events, dated at ∼28 and ∼59 Mya. These events contributed to the expansion and neofunctionalization of genes and gene families that play important roles in oil biosynthesis. The functional divergence of oil biosynthesis pathway genes, such as FAD2, SACPD, EAR, and ACPTE, following duplication, has been responsible for the differential accumulation of oleic and linoleic acids produced in olive compared with sesame, a closely related oil crop. Duplicated oleaster FAD2 genes are regulated by an siRNA derived from a transposable element-rich region, leading to suppressed levels of FAD2 gene expression. Additionally, neofunctionalization of members of the SACPD gene family has led to increased expression of SACPD2, 3, 5, and 7, consequently resulting in an increased desaturation of steric acid. Taken together, decreased FAD2 expression and increased SACPD expression likely explain the accumulation of exceptionally high levels of oleic acid in olive. The oleaster genome thus provides important insights into the evolution of oil biosynthesis and will be a valuable resource for oil crop genomics.
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Affiliation(s)
- Turgay Unver
- İzmir International Biomedicine and Genome Institute, Dokuz Eylül University, 35340 İzmir, Turkey;
| | | | - Lieven Sterck
- Department of Plant Biotechnology and Bioinformatics, Ghent University, 9052 Ghent, Belgium
- Center for Plant Systems Biology, VIB, 9052 Ghent, Belgium
| | - Mine Turktas
- Department of Biology, Faculty of Science, Cankiri Karatekin University, 18100 Cankiri, Turkey
| | - Rolf Lohaus
- Department of Plant Biotechnology and Bioinformatics, Ghent University, 9052 Ghent, Belgium
- Center for Plant Systems Biology, VIB, 9052 Ghent, Belgium
| | - Zhen Li
- Department of Plant Biotechnology and Bioinformatics, Ghent University, 9052 Ghent, Belgium
- Center for Plant Systems Biology, VIB, 9052 Ghent, Belgium
| | - Ming Yang
- BGI Shenzhen, 518038 Shenzhen, China
| | - Lijuan He
- BGI Shenzhen, 518038 Shenzhen, China
| | | | | | | | | | - Iskender Parmaksiz
- Department of Molecular Biology and Genetics, Faculty of Science, Gaziosmanpasa University, 60250 Tokat, Turkey
| | - Ekrem Dundar
- Department of Molecular Biology and Genetics, Faculty of Science, Balikesir University, 10145 Balikesir, Turkey
| | - Fuliang Xie
- Department of Biology, East Carolina University, Greenville, NC 27858
| | - Baohong Zhang
- Department of Biology, East Carolina University, Greenville, NC 27858
| | - Arif Ipek
- Department of Biology, Faculty of Science, Cankiri Karatekin University, 18100 Cankiri, Turkey
| | - Serkan Uranbey
- Department of Field Crops, Faculty of Agriculture, Ankara University, 06120 Ankara, Turkey
| | - Mustafa Erayman
- Department of Biology, Faculty of Arts and Science, Mustafa Kemal University, 31060 Hatay, Turkey
| | - Emre Ilhan
- Department of Biology, Faculty of Arts and Science, Mustafa Kemal University, 31060 Hatay, Turkey
| | - Oussama Badad
- Laboratory of Plant Physiology, University Mohamed V, 10102 Rabat, Morocco
| | - Hassan Ghazal
- Polydisciplinary Faculty of Nador, University Mohamed Premier, 62700 Nador, Morocco
| | - David A Lightfoot
- Department of Plant, Soil and Agricultural Systems, Southern Illinois University, Carbondale, IL 62901
| | - Pavan Kasarla
- Department of Plant, Soil and Agricultural Systems, Southern Illinois University, Carbondale, IL 62901
| | - Vincent Colantonio
- Department of Plant, Soil and Agricultural Systems, Southern Illinois University, Carbondale, IL 62901
| | - Huseyin Tombuloglu
- Institute for Research and Medical Consultation, University of Dammam, 34212 Dammam, Saudi Arabia
| | - Pilar Hernandez
- Instituto de Agricultura Sostenible, Consejo Superior de Investigaciones Científicas, 14004 Córdoba, Spain
| | - Nurengin Mete
- Olive Research Institute of Bornova, 35100 Izmir, Turkey
| | - Oznur Cetin
- Olive Research Institute of Bornova, 35100 Izmir, Turkey
| | - Marc Van Montagu
- Department of Plant Biotechnology and Bioinformatics, Ghent University, 9052 Ghent, Belgium;
- Center for Plant Systems Biology, VIB, 9052 Ghent, Belgium
| | | | - Qiang Gao
- BGI Shenzhen, 518038 Shenzhen, China
| | - Gabriel Dorado
- Departamento Bioquímica y Biología Molecular, Campus de Excelencia Internacional Agroalimentario, Universidad de Córdoba, 14071 Córdoba, Spain
| | - Yves Van de Peer
- Department of Plant Biotechnology and Bioinformatics, Ghent University, 9052 Ghent, Belgium;
- Center for Plant Systems Biology, VIB, 9052 Ghent, Belgium
- Department of Genetics, Genomics Research Institute, University of Pretoria, Pretoria 0028, South Africa
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11
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Abstract
This is a summary of the activities and scientific content of the first International Society for Computational Biology Student Council symposium in Africa. This meeting organized by the students for the students took place 8th of March 2015 in Dar Es Salaam, Tanzania.
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Affiliation(s)
- Yassine Souilmi
- Department of Biology, Mohamed Vth University, Rabat, 110 066, Morocco
- Department of Biomedical Informatics, Harvard University, Cambridge, MA, 02138, USA
| | - Imane Allali
- Department of Biology, Mohamed Vth University, Rabat, 110 066, Morocco
| | - Oussama Badad
- Department of Biology, Mohamed Vth University, Rabat, 110 066, Morocco
| | - Chinmay Kumar Dwibedi
- Department of Clinical Microbiology, Umea University, Umea, 901 87, Sweden
- Swedish Defence Research Agency, Umea, 164 90, Sweden
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