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Smith BE, Lu C. Heat stress during reproductive stages reduces camelina seed productivity and changes seed composition. Heliyon 2024; 10:e26678. [PMID: 38434085 PMCID: PMC10907518 DOI: 10.1016/j.heliyon.2024.e26678] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/15/2023] [Revised: 01/23/2024] [Accepted: 02/17/2024] [Indexed: 03/05/2024] Open
Abstract
Camelina (Camelina sativa L. Crantz) is a low-input oilseed crop with great potential in bioenergy and industrial oils. Improving tolerance to high temperatures is essential for camelina agronomic sustainability. Two genotypes, Suneson and Pryzeth, were exposed to a transient 14-day heat stress at 37 °C during the reproductive stages. Four cohorts of pods along the main stem, which were at different stages from fully developed pods (C1), young pods (C2), open flowers (C3) and flowering buds (C4) at the time of heat treatment, were examined for morphological and seed quality traits at maturity. The main stem length was shortened in both genotypes. Pods and seeds in all cohorts were negatively affected by heat, resulting in lower seed yield and reduced oil content. Seed size and seed weight had the greatest reduction in C1, pod size reduction was found the most in C3, and the number of fertile pods that contain at least one seed was reduced in C3 and C4. These results suggest that heat stress effects are developmental stage specific. Heat stress significantly reduced fertility during flowering and inhibited storage product biosynthesis and accumulation during seed filling which resulted in smaller and lighter seeds. Analyzing seed composition indicated that oil content decreased while protein content increased in seeds from heat treated plants. In addition, fatty acid composition was altered with the reduction of omega-3 α-linolenic acid and concomitantly increased omega-6 linoleic acid being the most significantly affected. Our results also revealed the different responses in the two genotypes examined, suggesting genetic variation in camelina germplasm which can be explored to improve heat tolerance. This study provides resources and guidance for future studies to understand genetic and physiological mechanisms of heat stress and to assist in improving the sustainability of camelina production facing climate change.
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Affiliation(s)
- Brian E Smith
- Department of Plant Sciences and Plant Pathology, Montana State University, Bozeman, MT 59717-3150, USA
| | - Chaofu Lu
- Department of Plant Sciences and Plant Pathology, Montana State University, Bozeman, MT 59717-3150, USA
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Fang C, Hamilton JP, Vaillancourt B, Wang YW, Wood JC, Deans NC, Scroggs T, Carlton L, Mailloux K, Douches DS, Nadakuduti SS, Jiang J, Buell CR. Cold stress induces differential gene expression of retained homeologs in Camelina sativa cv Suneson. FRONTIERS IN PLANT SCIENCE 2023; 14:1271625. [PMID: 38034564 PMCID: PMC10687638 DOI: 10.3389/fpls.2023.1271625] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Received: 08/02/2023] [Accepted: 10/26/2023] [Indexed: 12/02/2023]
Abstract
Camelina sativa (L.) Crantz, a member of the Brassicaceae, has potential as a biofuel feedstock which is attributable to the production of fatty acids in its seeds, its fast growth cycle, and low input requirements. While a genome assembly is available for camelina, it was generated from short sequence reads and is thus highly fragmented in nature. Using long read sequences, we generated a chromosome-scale, highly contiguous genome assembly (644,491,969 bp) for the spring biotype cultivar 'Suneson' with an N50 contig length of 12,031,512 bp and a scaffold N50 length of 32,184,682 bp. Annotation of protein-coding genes revealed 91,877 genes that encode 133,355 gene models. We identified a total of 4,467 genes that were significantly up-regulated under cold stress which were enriched in gene ontology terms associated with "response to cold" and "response to abiotic stress". Coexpression analyses revealed multiple coexpression modules that were enriched in genes differentially expressed following cold stress that had putative functions involved in stress adaptation, specifically within the plastid. With access to a highly contiguous genome assembly, comparative analyses with Arabidopsis thaliana revealed 23,625 A. thaliana genes syntenic with 45,453 Suneson genes. Of these, 24,960 Suneson genes were syntenic to 8,320 A. thaliana genes reflecting a 3 camelina homeolog to 1 Arabidopsis gene relationship and retention of all three homeologs. Some of the retained triplicated homeologs showed conserved gene expression patterns under control and cold-stressed conditions whereas other triplicated homeologs displayed diverged expression patterns revealing sub- and neo-functionalization of the homeologs at the transcription level. Access to the chromosome-scale assembly of Suneson will enable both basic and applied research efforts in the improvement of camelina as a sustainable biofuel feedstock.
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Affiliation(s)
- Chao Fang
- Department of Plant Biology, Michigan State University, East Lansing, MI, United States
| | - John P. Hamilton
- Center for Applied Genetic Technologies, University of Georgia, Athens, GA, United States
- Department of Crop & Soil Sciences, University of Georgia, Athens, GA, United States
| | - Brieanne Vaillancourt
- Center for Applied Genetic Technologies, University of Georgia, Athens, GA, United States
| | - Yi-Wen Wang
- Center for Applied Genetic Technologies, University of Georgia, Athens, GA, United States
| | - Joshua C. Wood
- Center for Applied Genetic Technologies, University of Georgia, Athens, GA, United States
| | - Natalie C. Deans
- Center for Applied Genetic Technologies, University of Georgia, Athens, GA, United States
| | - Taylor Scroggs
- Department of Genetics, University of Georgia, Athens, GA, United States
| | - Lemor Carlton
- Center for Applied Genetic Technologies, University of Georgia, Athens, GA, United States
| | - Kathrine Mailloux
- Center for Applied Genetic Technologies, University of Georgia, Athens, GA, United States
| | - David S. Douches
- Department of Plant, Soil & Microbial Sciences, Michigan State University, East Lansing, MI, United States
| | - Satya Swathi Nadakuduti
- Department of Environmental Horticulture, University of Florida, Gainesville, FL, United States
- Plant Molecular and Cellular Biology Program, University of Florida, Gainesville, FL, United States
| | - Jiming Jiang
- Department of Plant Biology, Michigan State University, East Lansing, MI, United States
- Department of Horticulture, Michigan State University, East Lansing, MI, United States
| | - C. Robin Buell
- Center for Applied Genetic Technologies, University of Georgia, Athens, GA, United States
- Department of Crop & Soil Sciences, University of Georgia, Athens, GA, United States
- Institute of Plant Breeding, Genetics & Genomics, University of Georgia, Athens, GA, United States
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Großkinsky DK, Faure JD, Gibon Y, Haslam RP, Usadel B, Zanetti F, Jonak C. The potential of integrative phenomics to harness underutilized crops for improving stress resilience. FRONTIERS IN PLANT SCIENCE 2023; 14:1216337. [PMID: 37409292 PMCID: PMC10318926 DOI: 10.3389/fpls.2023.1216337] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Key Words] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 05/03/2023] [Accepted: 06/08/2023] [Indexed: 07/07/2023]
Affiliation(s)
- Dominik K. Großkinsky
- AIT Austrian Institute of Technology, Center for Health and Bioresources, Bioresources Unit, Tulln a. d. Donau, Austria
| | - Jean-Denis Faure
- Université Paris-Saclay, INRAE, AgroParisTech, Institut Jean-Pierre Bourgin, Versailles, France
| | - Yves Gibon
- INRAE, Univ. Bordeaux, UMR BFP, Villenave d’Ornon, France
- Bordeaux Metabolome, INRAE, Univ. Bordeaux, Villenave d’Ornon, France
| | | | - Björn Usadel
- IBG-4 Bioinformatics, CEPLAS, Forschungszentrum, Jülich, Germany
- Biological Data Science, Heinrich Heine University, Universitätsstrasse 1, Düsseldorf, Germany
| | - Federica Zanetti
- Department of Agricultural and Food Sciences (DISTAL), Alma Mater Studiorum - Università di Bologna, Bologna, Italy
| | - Claudia Jonak
- AIT Austrian Institute of Technology, Center for Health and Bioresources, Bioresources Unit, Tulln a. d. Donau, Austria
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Session AM, Rokhsar DS. Transposon signatures of allopolyploid genome evolution. Nat Commun 2023; 14:3180. [PMID: 37263993 DOI: 10.1038/s41467-023-38560-z] [Citation(s) in RCA: 3] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/20/2021] [Accepted: 05/08/2023] [Indexed: 06/03/2023] Open
Abstract
Hybridization brings together chromosome sets from two or more distinct progenitor species. Genome duplication associated with hybridization, or allopolyploidy, allows these chromosome sets to persist as distinct subgenomes during subsequent meioses. Here, we present a general method for identifying the subgenomes of a polyploid based on shared ancestry as revealed by the genomic distribution of repetitive elements that were active in the progenitors. This subgenome-enriched transposable element signal is intrinsic to the polyploid, allowing broader applicability than other approaches that depend on the availability of sequenced diploid relatives. We develop the statistical basis of the method, demonstrate its applicability in the well-studied cases of tobacco, cotton, and Brassica napus, and apply it to several cases: allotetraploid cyprinids, allohexaploid false flax, and allooctoploid strawberry. These analyses provide insight into the origins of these polyploids, revise the subgenome identities of strawberry, and provide perspective on subgenome dominance in higher polyploids.
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Affiliation(s)
- Adam M Session
- Department of Molecular and Cell, University of California, Berkeley, CA, 94720, USA.
- US Department of Energy Joint Genome Institute, 1 Cyclotron Road, Berkeley, CA, 94720, USA.
- Department of Biological Sciences, Binghamton University, Binghamton, NY, 13902, USA.
| | - Daniel S Rokhsar
- Department of Molecular and Cell, University of California, Berkeley, CA, 94720, USA
- US Department of Energy Joint Genome Institute, 1 Cyclotron Road, Berkeley, CA, 94720, USA
- Molecular Genetics Unit, Okinawa Institute for Science and Technology Graduate University, Okinawa, Japan
- Chan Zuckerberg BioHub, San Francisco, CA, USA
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Ghidoli M, Ponzoni E, Araniti F, Miglio D, Pilu R. Genetic Improvement of Camelina sativa (L.) Crantz: Opportunities and Challenges. PLANTS (BASEL, SWITZERLAND) 2023; 12:570. [PMID: 36771654 PMCID: PMC9920110 DOI: 10.3390/plants12030570] [Citation(s) in RCA: 2] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Received: 11/30/2022] [Revised: 01/21/2023] [Accepted: 01/24/2023] [Indexed: 06/18/2023]
Abstract
In recent years, a renewed interest in novel crops has been developing due to the environmental issues associated with the sustainability of agricultural practices. In particular, a cover crop, Camelina sativa (L.) Crantz, belonging to the Brassicaceae family, is attracting the scientific community's interest for several desirable features. It is related to the model species Arabidopsis thaliana, and its oil extracted from the seeds can be used either for food and feed, or for industrial uses such as biofuel production. From an agronomic point of view, it can grow in marginal lands with little or no inputs, and is practically resistant to the most important pathogens of Brassicaceae. Although cultivated in the past, particularly in northern Europe and Italy, in the last century, it was abandoned. For this reason, little breeding work has been conducted to improve this plant, also because of the low genetic variability present in this hexaploid species. In this review, we summarize the main works on this crop, focused on genetic improvement with three main objectives: yield, seed oil content and quality, and reduction in glucosinolates content in the seed, which are the main anti-nutritional substances present in camelina. We also report the latest advances in utilising classical plant breeding, transgenic approaches, and CRISPR-Cas9 genome-editing.
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Affiliation(s)
- Martina Ghidoli
- Department of Agricultural and Environmental Sciences—Production, Landscape, Agroenergy, Università degli Studi di Milano, Via G. Celoria 2, 20133 Milan, Italy
| | - Elena Ponzoni
- Institute of Agricultural Biology and Biotechnology, Consiglio Nazionale delle Ricerche, Via E. Bassini 15, 20133 Milan, Italy
| | - Fabrizio Araniti
- Department of Agricultural and Environmental Sciences—Production, Landscape, Agroenergy, Università degli Studi di Milano, Via G. Celoria 2, 20133 Milan, Italy
| | - Daniela Miglio
- Laboratory for Mother and Child Health, Department of Public Health, Istituto di Ricerche Farmacologiche Mario Negri IRCCS, 20133 Milan, Italy
| | - Roberto Pilu
- Department of Agricultural and Environmental Sciences—Production, Landscape, Agroenergy, Università degli Studi di Milano, Via G. Celoria 2, 20133 Milan, Italy
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Li F, Li Z, Wei Y, Zhang L, Ning E, Yu L, Zhu J, Wang X, Ma Y, Fan Y. Qualitative and quantitative analysis of polyphenols in camelina seed and theirs antioxidant activities. Nat Prod Res 2022; 37:1888-1891. [PMID: 36089913 DOI: 10.1080/14786419.2022.2121829] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/14/2022]
Abstract
Camelina [Camelina sativa (L.) Crantz] seed has long been consumed as a source of food in Canada. But limited information is available concerning the systematical evaluation of the composition, content, and antioxidant activity of Camelina seed polyphenol extract (CSPE). Therefore, the aim of this study was to identify, quantify and evaluate the antioxidant activity of CSPE. The result showed that eight compositions were identified and determined by the UPLC-DAD-ESI-MS2 analysis. CSPE has potent free radical scavenging capacity. CSPE treatment significantly increased the activities of the antioxidant enzymes (superoxide dismutase and catalase) and glutathione content in a dose-dependent manner in RAW264.7 cells with oxidative injury and also reduced malondialdehyde content (P < 0.01). It may be concluded that CSPE has a strong antioxidant activity as depicted by the in vitro experiments and thus possesses the potential to be developed as food antioxidants or as an ingredient in functional foods.
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Affiliation(s)
- Feifei Li
- Medical College, Huanghe Science and Technology College, Zhengzhou, China
- Analytical Department, Henan Province Natural Product Biotechnology Co, Ltd, Zhengzhou, China
| | - Zhining Li
- Analytical Department, Henan Province Natural Product Biotechnology Co, Ltd, Zhengzhou, China
| | - Yue Wei
- Analytical Department, Henan Province Natural Product Biotechnology Co, Ltd, Zhengzhou, China
| | - Lixian Zhang
- Analytical Department, Henan Province Natural Product Biotechnology Co, Ltd, Zhengzhou, China
| | - Erjuan Ning
- Analytical Department, Henan Province Natural Product Biotechnology Co, Ltd, Zhengzhou, China
| | - Liqin Yu
- Analytical Department, Henan Province Natural Product Biotechnology Co, Ltd, Zhengzhou, China
| | - Jie Zhu
- Analytical Department, Henan Province Natural Product Biotechnology Co, Ltd, Zhengzhou, China
| | - Xuefang Wang
- Analytical Department, Henan Province Natural Product Biotechnology Co, Ltd, Zhengzhou, China
| | - Yanni Ma
- Analytical Department, Henan Province Natural Product Biotechnology Co, Ltd, Zhengzhou, China
| | - Yi Fan
- Analytical Department, Henan Province Natural Product Biotechnology Co, Ltd, Zhengzhou, China
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7
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Neupane D, Lohaus RH, Solomon JKQ, Cushman JC. Realizing the Potential of Camelina sativa as a Bioenergy Crop for a Changing Global Climate. PLANTS (BASEL, SWITZERLAND) 2022; 11:plants11060772. [PMID: 35336654 PMCID: PMC8951600 DOI: 10.3390/plants11060772] [Citation(s) in RCA: 15] [Impact Index Per Article: 7.5] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 02/11/2022] [Revised: 02/28/2022] [Accepted: 03/04/2022] [Indexed: 05/09/2023]
Abstract
Camelina sativa (L.) Crantz. is an annual oilseed crop within the Brassicaceae family. C. sativa has been grown since as early as 4000 BCE. In recent years, C. sativa received increased attention as a climate-resilient oilseed, seed meal, and biofuel (biodiesel and renewable or green diesel) crop. This renewed interest is reflected in the rapid rise in the number of peer-reviewed publications (>2300) containing “camelina” from 1997 to 2021. An overview of the origins of this ancient crop and its genetic diversity and its yield potential under hot and dry growing conditions is provided. The major biotic barriers that limit C. sativa production are summarized, including weed control, insect pests, and fungal, bacterial, and viral pathogens. Ecosystem services provided by C. sativa are also discussed. The profiles of seed oil and fatty acid composition and the many uses of seed meal and oil are discussed, including food, fodder, fuel, industrial, and medical benefits. Lastly, we outline strategies for improving this important and versatile crop to enhance its production globally in the face of a rapidly changing climate using molecular breeding, rhizosphere microbiota, genetic engineering, and genome editing approaches.
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Affiliation(s)
- Dhurba Neupane
- MS330/Department of Biochemistry & Molecular Biology, University of Nevada, Reno, NV 89557, USA; (D.N.); (R.H.L.)
| | - Richard H. Lohaus
- MS330/Department of Biochemistry & Molecular Biology, University of Nevada, Reno, NV 89557, USA; (D.N.); (R.H.L.)
| | - Juan K. Q. Solomon
- Department of Agriculture, Veterinary & Rangeland Sciences, University of Nevada, Reno, NV 89557, USA;
| | - John C. Cushman
- MS330/Department of Biochemistry & Molecular Biology, University of Nevada, Reno, NV 89557, USA; (D.N.); (R.H.L.)
- Correspondence: ; Tel.: +1-775-784-1918
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Li H, Hu X, Lovell JT, Grabowski PP, Mamidi S, Chen C, Amirebrahimi M, Kahanda I, Mumey B, Barry K, Kudrna D, Schmutz J, Lachowiec J, Lu C. Genetic dissection of natural variation in oilseed traits of camelina by whole-genome resequencing and QTL mapping. THE PLANT GENOME 2021; 14:e20110. [PMID: 34106529 DOI: 10.1002/tpg2.20110] [Citation(s) in RCA: 10] [Impact Index Per Article: 3.3] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 02/12/2021] [Accepted: 04/29/2021] [Indexed: 06/12/2023]
Abstract
Camelina [Camelina sativa (L.) Crantz] is an oilseed crop in the Brassicaceae family that is currently being developed as a source of bioenergy and healthy fatty acids. To facilitate modern breeding efforts through marker-assisted selection and biotechnology, we evaluated genetic variation among a worldwide collection of 222 camelina accessions. We performed whole-genome resequencing to obtain single nucleotide polymorphism (SNP) markers and to analyze genomic diversity. We also conducted phenotypic field evaluations in two consecutive seasons for variations in key agronomic traits related to oilseed production such as seed size, oil content (OC), fatty acid composition, and flowering time. We determined the population structure of the camelina accessions using 161,301 SNPs. Further, we identified quantitative trait loci (QTL) and candidate genes controlling the above field-evaluated traits by genome-wide association studies (GWAS) complemented with linkage mapping using a recombinant inbred line (RIL) population. Characterization of the natural variation at the genome and phenotypic levels provides valuable resources to camelina genetic studies and crop improvement. The QTL and candidate genes should assist in breeding of advanced camelina varieties that can be integrated into the cropping systems for the production of high yield of oils of desired fatty acid composition.
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Affiliation(s)
- Huang Li
- Department of Plant Sciences and Plant Pathology, Montana State University, Bozeman, MT, 59717, USA
| | - Xiao Hu
- School of Computing, Montana State University, Bozeman, MT, 59717, USA
| | - John T Lovell
- Genome Sequencing Center, HudsonAlpha Institute for Biotechnology, Huntsville, AL, 38508, USA
| | - Paul P Grabowski
- Genome Sequencing Center, HudsonAlpha Institute for Biotechnology, Huntsville, AL, 38508, USA
| | - Sujan Mamidi
- Genome Sequencing Center, HudsonAlpha Institute for Biotechnology, Huntsville, AL, 38508, USA
| | - Cindy Chen
- United States Department of Energy Joint Genome Institute, Lawrence Berkeley National Laboratory, Berkeley, CA, 94720, USA
| | - Mojgan Amirebrahimi
- United States Department of Energy Joint Genome Institute, Lawrence Berkeley National Laboratory, Berkeley, CA, 94720, USA
| | - Indika Kahanda
- School of Computing, Montana State University, Bozeman, MT, 59717, USA
| | - Brendan Mumey
- School of Computing, Montana State University, Bozeman, MT, 59717, USA
| | - Kerrie Barry
- United States Department of Energy Joint Genome Institute, Lawrence Berkeley National Laboratory, Berkeley, CA, 94720, USA
| | - David Kudrna
- Arizona Genomics Institute, School of Plant Sciences, University of Arizona, Tucson, AZ, 85721, USA
| | - Jeremy Schmutz
- Genome Sequencing Center, HudsonAlpha Institute for Biotechnology, Huntsville, AL, 38508, USA
- United States Department of Energy Joint Genome Institute, Lawrence Berkeley National Laboratory, Berkeley, CA, 94720, USA
| | - Jennifer Lachowiec
- Department of Plant Sciences and Plant Pathology, Montana State University, Bozeman, MT, 59717, USA
| | - Chaofu Lu
- Department of Plant Sciences and Plant Pathology, Montana State University, Bozeman, MT, 59717, USA
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