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Monroe JG, Cai H, Des Marais DL. Diversity in nonlinear responses to soil moisture shapes evolutionary constraints in Brachypodium. G3 (BETHESDA, MD.) 2021; 11:jkab334. [PMID: 34570202 PMCID: PMC8664479 DOI: 10.1093/g3journal/jkab334] [Citation(s) in RCA: 5] [Impact Index Per Article: 1.7] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Subscribe] [Scholar Register] [Received: 07/23/2021] [Accepted: 09/15/2021] [Indexed: 12/03/2022]
Abstract
Water availability is perhaps the greatest environmental determinant of plant yield and fitness. However, our understanding of plant-water relations is limited because-like many studies of organism-environment interaction-it is primarily informed by experiments considering performance at two discrete levels-wet and dry-rather than as a continuously varying environmental gradient. Here, we used experimental and statistical methods based on function-valued traits to explore genetic variation in responses to a continuous soil moisture gradient in physiological and morphological traits among 10 genotypes across two species of the model grass genus Brachypodium. We find that most traits exhibit significant genetic variation and nonlinear responses to soil moisture variability. We also observe differences in the shape of these nonlinear responses between traits and genotypes. Emergent phenomena arise from this variation including changes in trait correlations and evolutionary constraints as a function of soil moisture. Our results point to the importance of considering diversity in nonlinear organism-environment relationships to understand plastic and evolutionary responses to changing climates.
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Affiliation(s)
- J Grey Monroe
- Department of Plant Sciences, University of California at Davis, Davis, CA 95616, USA
| | - Haoran Cai
- Department of Civil and Environmental Engineering, Massachusetts Institute of Technology, Cambridge, MA 02139, USA
| | - David L Des Marais
- Department of Civil and Environmental Engineering, Massachusetts Institute of Technology, Cambridge, MA 02139, USA
- The Arnold Arboretum of Harvard University, Boston, MA 02130, USA
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Xu X, Wang K, Pan J, Chen X. Small RNA sequencing identifies cucumber miRNA roles in waterlogging-triggered adventitious root primordia formation. Mol Biol Rep 2019; 46:6381-6389. [PMID: 31538299 DOI: 10.1007/s11033-019-05084-z] [Citation(s) in RCA: 8] [Impact Index Per Article: 1.6] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/27/2019] [Accepted: 09/17/2019] [Indexed: 01/03/2023]
Abstract
The formation of adventitious roots (ARs) is a key morphological adaptation of cucumber (Cucumis sativus L.) to waterlogging stress. MicroRNAs (miRNAs) constitute a group of non-coding small RNAs (sRNA) that play crucial roles in regulating diverse biological processes, including waterlogging acclimation. However, which specific miRNAs and how they are involved in waterlogging-triggered de novo AR primordia formation are not fully known. Here, Illumina sRNA sequencing was applied to sequence six sRNA libraries generated from the waterlogging-tolerant cucumber Zaoer-N after 48 h of waterlogging and the control. A total of 358 cucumber miRNAs, 312 known and 46 novel, were obtained. Among them, 23 were differentially expressed, with 10 and 13 being up- and downregulated, respectively. A qPCR expression study confirmed that the identified differentially expressed miRNAs were credible. A total of 657 putative miRNA target genes were predicted for the 23 miRNAs using an in silico approach. A gene ontology enrichment analysis revealed that target genes functioning in cell redox homeostasis, cytoskeleton, photosynthesis and cell growth were over-represented. In total, 58 of the 657 target genes showed inverse expression patterns compared with their respective miRNAs through a combined analysis of sRNA- and RNA-sequencing-based transcriptome datasets using the same experimental design. The target gene annotation included a peroxidase, a GDSL esterases/lipase and two heavy metal-associated isoprenylated plant proteins. Our results provide an important framework for understanding the unique miRNA patterns seen in responses to waterlogging and the miRNA-mediated formation of de novo AR primordia in cucumber.
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Affiliation(s)
- Xuewen Xu
- School of Horticulture and Plant Protection, Yangzhou University, Yangzhou, 225009, Jiangsu, China.,Joint International Research Laboratory of Agriculture & Agri-Product Safety, Yangzhou University, Yangzhou, 225009, Jiangsu, China
| | - Kaixuan Wang
- School of Horticulture and Plant Protection, Yangzhou University, Yangzhou, 225009, Jiangsu, China
| | - Jiawei Pan
- School of Horticulture and Plant Protection, Yangzhou University, Yangzhou, 225009, Jiangsu, China.,Joint International Research Laboratory of Agriculture & Agri-Product Safety, Yangzhou University, Yangzhou, 225009, Jiangsu, China
| | - Xuehao Chen
- School of Horticulture and Plant Protection, Yangzhou University, Yangzhou, 225009, Jiangsu, China. .,Joint International Research Laboratory of Agriculture & Agri-Product Safety, Yangzhou University, Yangzhou, 225009, Jiangsu, China.
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Kudoyarova GR, Romanova AK, Novichkova NS, Vysotskaya LB, Akhtyamova Z, Akhiyarova GR, Veselov SY, Ivanov BN. Development of sugar beet leaves: contents of hormones, localization of abscisic acid, and the level of products of photosynthesis. PLANT SIGNALING & BEHAVIOR 2018; 13:e1482175. [PMID: 29944451 PMCID: PMC6110365 DOI: 10.1080/15592324.2018.1482175] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.2] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 04/17/2018] [Accepted: 05/23/2018] [Indexed: 05/23/2023]
Abstract
The level of hormones in the tissues of sugar beet leaves of different age in parallel with their growth and metabolic activity was assayed; the latter was analyzed, measuring the contents of sugars and N-containing compounds, and the activities of Rubisco and proteases. The highest auxin and ABA concentration was detected in the actively growing upper leaf, while high level of cytokinins was maintained in the middle and upper leaves characterized by intensive photosynthesis. Leaf senescence being manifested in decline of chlorophyll content, decrease of photosynthesis and activation of proteolysis was accompanied by a decline in concentration of cytokinins. Glucose level gradually increased from upper (younger) to a lower (elder) leaves; this was accompanied with the signs of senescence on the background of decreased cytokinins level. Immuno-histochemical technique revealed increased level of abscisic acid in phloem parenchyma of the lowest leaf. The results suggest a possible involvement of auxins in maintaining leaf growth, an implication of decreased cytokinins level in the hypothesized induction of senescence by glucose, and a participation of abscisic acid in the active loading of metabolites into the phloem of senescing leaf.
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Affiliation(s)
- G. R. Kudoyarova
- Ufa Institute of Biology, Ufa Research Centre, Russian Academy of Sciences, Ufa, Russia
| | - A. K. Romanova
- Institute of Basic Biological Problems, Russian Academy of Science, Pushchino, Russia
| | - N. S. Novichkova
- Institute of Basic Biological Problems, Russian Academy of Science, Pushchino, Russia
| | - L. B. Vysotskaya
- Ufa Institute of Biology, Ufa Research Centre, Russian Academy of Sciences, Ufa, Russia
| | - Z. Akhtyamova
- Ufa Institute of Biology, Ufa Research Centre, Russian Academy of Sciences, Ufa, Russia
| | - G. R. Akhiyarova
- Ufa Institute of Biology, Ufa Research Centre, Russian Academy of Sciences, Ufa, Russia
| | - S. Y. Veselov
- Bashkir State University, Biological department, Ufa, Russia
| | - B. N. Ivanov
- Institute of Basic Biological Problems, Russian Academy of Science, Pushchino, Russia
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Jiang Y, Wang X, Yu X, Zhao X, Luo N, Pei Z, Liu H, Garvin DF. Quantitative Trait Loci Associated with Drought Tolerance in Brachypodium distachyon. FRONTIERS IN PLANT SCIENCE 2017; 8:811. [PMID: 28567049 PMCID: PMC5434166 DOI: 10.3389/fpls.2017.00811] [Citation(s) in RCA: 9] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 03/02/2017] [Accepted: 05/01/2017] [Indexed: 05/11/2023]
Abstract
The temperate wild grass Brachypodium distachyon (Brachypodium) serves as model system for studying turf and forage grasses. Brachypodium collections show diverse responses to drought stress, but little is known about the genetic mechanisms of drought tolerance of this species. The objective of this study was to identify quantitative trait loci (QTLs) associated with drought tolerance traits in Brachypodium. We assessed leaf fresh weight (LFW), leaf dry weight (LDW), leaf water content (LWC), leaf wilting (WT), and chlorophyll fluorescence (Fv/Fm) under well-watered and drought conditions on a recombinant inbred line (RIL) population from two parents (Bd3-1 and Bd1-1) known to differ in their drought adaptation. A linkage map of the RIL population was constructed using 467 single nucleotide polymorphism (SNP) markers obtained from genotyping-by-sequencing. The Bd3-1/Bd1-1 map spanned 1,618 cM and had an average distance of 3.5 cM between adjacent single nucleotide polymorphisms (SNPs). Twenty-six QTLs were identified in chromosome 1, 2, and 3 in two experiments, with 14 of the QTLs under well-watered conditions and 12 QTLs under drought stress. In Experiment 1, a QTL located on chromosome 2 with a peak at 182 cM appeared to simultaneously control WT, LWC, and Fv/Fm under drought stress, accounting for 11-18.7% of the phenotypic variation. Allelic diversity of candidate genes DREB2B, MYB, and SPK, which reside in one multi-QTL region, may play a role in the natural variation in whole plant drought tolerance in Brachypodium. Co-localization of QTLs for multiple drought-related traits suggest that the gene(s) involved are important regulators of drought tolerance in Brachypodium.
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Affiliation(s)
- Yiwei Jiang
- College of Agronomy, Resources, and Environment, Tianjin Agricultural UniversityTianjin, China
- Department of Agronomy, Purdue UniversityWest Lafayette, IN, United States
| | - Xicheng Wang
- Institute of Horticulture, Jiangsu Academy of Agricultural SciencesNanjing, China
| | - Xiaoqing Yu
- Department of Agronomy, Iowa State UniversityAmes, IA, United States
| | - Xiongwei Zhao
- Department of Agronomy, Purdue UniversityWest Lafayette, IN, United States
- Department of Crop Genetics and Breeding, Sichuan Agricultural UniversityChengdu, China
| | - Na Luo
- College of Life Sciences, South China Agricultural UniversityGuangzhou, China
| | - Zhongyou Pei
- College of Agronomy, Resources, and Environment, Tianjin Agricultural UniversityTianjin, China
| | - Huifen Liu
- College of Agronomy, Resources, and Environment, Tianjin Agricultural UniversityTianjin, China
| | - David F. Garvin
- Department of Agronomy and Plant Genetics, University of MinnesotaSt. Paul, MN, United States
- Plant Science Research Unit, United States Department of Agriculture, Agricultural Research ServiceSt. Paul, MN, United States
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