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Meena MR, Mohanraj K, Kumar R, Kumar RA, Chhabra ML, Kulshreshtha N, Krishnappa G, Swamy HKM, Suganya A, Govindaraj P, Hemaprabha G. Deciphering Winter Sprouting Potential of Erianthus procerus Derived Sugarcane Hybrids under Subtropical Climates. PLANTS (BASEL, SWITZERLAND) 2024; 13:1023. [PMID: 38611552 PMCID: PMC11013679 DOI: 10.3390/plants13071023] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 12/15/2023] [Revised: 02/08/2024] [Accepted: 03/06/2024] [Indexed: 04/14/2024]
Abstract
Winter sprouting potential and red rot resistance are two key parameters for successful sugarcane breeding in the subtropics. However, the cultivated sugarcane hybrids had a narrow genetic base; hence, the present study was planned to evaluate the Erianthus procerus genome introgressed Saccharum hybrids for their ratooning potential under subtropical climates and red rot tolerance under tropical and subtropical climates. A set of 15 Erianthus procerus derived hybrids confirmed through the 5S rDNA marker, along with five check varieties, were evaluated for agro-morphological, quality, and physiological traits for two years (2018-2019 and 2019-2020) and winter sprouting potential for three years (2018-2019, 2019-2020, and 2020-2021). The experimental material was also tested against the most prevalent isolates of the red rot pathogen in tropical (Cf671 and Cf671 + Cf9401) and subtropical regions (Cf08 and Cf09). The E. procerus hybrid GU 12-19 had the highest winter sprouting potential, with a winter sprouting index (WSI) of 10.6, followed by GU 12-22 with a WSI of 8.5. The other top-performing hybrids were as follows: GU 12-21 and GU 12-29 with a WSI of 7.2 and 6.9, respectively. A set of nine E. procerus-derived hybrids, i.e., GU04 (28) EO-2, GU12-19, GU12-21, GU12-22, GU12-23, GU12-26, GU12-27, GU12-30, and GU12-31, were resistant to the most prevalent isolates of red rot in both tropical and subtropical conditions. The association analysis revealed significant correlations between the various traits, particularly the fibre content, with a maximum number of associations, which indicates its multifaceted impact on sugarcane characteristics. Principal component analysis (PCA) summarised the data, explaining 57.6% of the total variation for the measured traits and genotypes, providing valuable insights into the performance and characteristics of the Erianthus procerus derived hybrids under subtropical climates. The anthocyanin content of Erianthus procerus hybrids was better than the check varieties, ranging from 0.123 to 0.179 (2018-2019) and 0.111 to 0.172 (2019-2020); anthocyanin plays a vital role in mitigating cold injury, acting as an antioxidant in cool weather conditions, particularly in sugarcane. Seven hybrids recorded a more than 22% fibre threshold, indicating their industrial potential. These hybrids could serve as potential donors for cold tolerance and a high ratooning ability, along with red rot resistance, under subtropical climates.
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Affiliation(s)
- Mintu Ram Meena
- ICAR Sugarcane Breeding Institute, Regional Centre, Karnal 132011, India; (R.K.)
| | - K. Mohanraj
- ICAR Sugarcane Breeding Institute, Coimbatore 641007, India; (R.A.K.); (G.K.); (H.K.M.S.); (A.S.); (P.G.); (G.H.)
| | - Ravinder Kumar
- ICAR Sugarcane Breeding Institute, Regional Centre, Karnal 132011, India; (R.K.)
| | - Raja Arun Kumar
- ICAR Sugarcane Breeding Institute, Coimbatore 641007, India; (R.A.K.); (G.K.); (H.K.M.S.); (A.S.); (P.G.); (G.H.)
| | - Manohar Lal Chhabra
- ICAR Sugarcane Breeding Institute, Regional Centre, Karnal 132011, India; (R.K.)
| | | | - Gopalareddy Krishnappa
- ICAR Sugarcane Breeding Institute, Coimbatore 641007, India; (R.A.K.); (G.K.); (H.K.M.S.); (A.S.); (P.G.); (G.H.)
| | - H. K. Mahadeva Swamy
- ICAR Sugarcane Breeding Institute, Coimbatore 641007, India; (R.A.K.); (G.K.); (H.K.M.S.); (A.S.); (P.G.); (G.H.)
| | - A. Suganya
- ICAR Sugarcane Breeding Institute, Coimbatore 641007, India; (R.A.K.); (G.K.); (H.K.M.S.); (A.S.); (P.G.); (G.H.)
| | - Perumal Govindaraj
- ICAR Sugarcane Breeding Institute, Coimbatore 641007, India; (R.A.K.); (G.K.); (H.K.M.S.); (A.S.); (P.G.); (G.H.)
| | - Govind Hemaprabha
- ICAR Sugarcane Breeding Institute, Coimbatore 641007, India; (R.A.K.); (G.K.); (H.K.M.S.); (A.S.); (P.G.); (G.H.)
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Zhang B, Huang Y, Zhang L, Zhou Z, Zhou S, Duan W, Yang C, Gao Y, Li S, Chen M, Li Y, Yang X, Zhang G, Huang D. Genome-Wide Association Study Unravels Quantitative Trait Loci and Genes Associated with Yield-Related Traits in Sugarcane. JOURNAL OF AGRICULTURAL AND FOOD CHEMISTRY 2023; 71:16815-16826. [PMID: 37856846 DOI: 10.1021/acs.jafc.3c02935] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 10/21/2023]
Abstract
Sugarcane, a major sugar and energy crop worldwide faces an increasing demand for higher yields. Identifying yield-related markers and candidate genes is valuable for breeding high-yield varieties using molecular techniques. In this work, seven yield-related traits were evaluated in a diversity panel of 159 genotypes, derived from Tripidium arundinaceum, Saccharum spontaneum, and modern sugarcane genotypes. All traits exhibited significant genetic variance with high heritability and high correlations. Genetic diversity analysis reveals a genomic decay of 23 kb and an average single nucleotide polymorphism (SNP) number of 25,429 per genotype. These 159 genotypes were divided into 4 subgroups. Genome-wide association analysis identified 47 SNPs associated with brix, spanning 36 quantitative trait loci (QTLs), and 138 SNPs for other traits across 104 QTLs, covering all 32 chromosomes. Interestingly, 12 stable QTLs associated with yield-related traits were identified, which contained 35 candidate genes. This work provides markers and candidate genes for marker-assisted breeding to improve sugarcane yields.
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Affiliation(s)
- Baoqing Zhang
- Key Laboratory of Sugarcane Biotechnology and Genetic Improvement (Guangxi), Ministry of Agriculture and Rural Affairs, Guangxi Key Laboratory of Sugarcane Genetic Improvement, Sugarcane Research Institute, Guangxi Academy of Agricultural Sciences, Sugarcane Research Center, Chinese Academy of Agricultural Sciences, Nanning 530007, China
| | - Yuxin Huang
- Key Laboratory of Sugarcane Biotechnology and Genetic Improvement (Guangxi), Ministry of Agriculture and Rural Affairs, Guangxi Key Laboratory of Sugarcane Genetic Improvement, Sugarcane Research Institute, Guangxi Academy of Agricultural Sciences, Sugarcane Research Center, Chinese Academy of Agricultural Sciences, Nanning 530007, China
| | - Lijun Zhang
- State Key Laboratory of Conservation and Utilization of Subtropical Agro-Bioresources, Guangxi University, Nanning 530004, China
| | - Zhongfeng Zhou
- Key Laboratory of Sugarcane Biotechnology and Genetic Improvement (Guangxi), Ministry of Agriculture and Rural Affairs, Guangxi Key Laboratory of Sugarcane Genetic Improvement, Sugarcane Research Institute, Guangxi Academy of Agricultural Sciences, Sugarcane Research Center, Chinese Academy of Agricultural Sciences, Nanning 530007, China
| | - Shan Zhou
- Key Laboratory of Sugarcane Biotechnology and Genetic Improvement (Guangxi), Ministry of Agriculture and Rural Affairs, Guangxi Key Laboratory of Sugarcane Genetic Improvement, Sugarcane Research Institute, Guangxi Academy of Agricultural Sciences, Sugarcane Research Center, Chinese Academy of Agricultural Sciences, Nanning 530007, China
| | - Weixing Duan
- Key Laboratory of Sugarcane Biotechnology and Genetic Improvement (Guangxi), Ministry of Agriculture and Rural Affairs, Guangxi Key Laboratory of Sugarcane Genetic Improvement, Sugarcane Research Institute, Guangxi Academy of Agricultural Sciences, Sugarcane Research Center, Chinese Academy of Agricultural Sciences, Nanning 530007, China
| | - Cuifang Yang
- Key Laboratory of Sugarcane Biotechnology and Genetic Improvement (Guangxi), Ministry of Agriculture and Rural Affairs, Guangxi Key Laboratory of Sugarcane Genetic Improvement, Sugarcane Research Institute, Guangxi Academy of Agricultural Sciences, Sugarcane Research Center, Chinese Academy of Agricultural Sciences, Nanning 530007, China
| | - Yijing Gao
- Key Laboratory of Sugarcane Biotechnology and Genetic Improvement (Guangxi), Ministry of Agriculture and Rural Affairs, Guangxi Key Laboratory of Sugarcane Genetic Improvement, Sugarcane Research Institute, Guangxi Academy of Agricultural Sciences, Sugarcane Research Center, Chinese Academy of Agricultural Sciences, Nanning 530007, China
| | - Sicheng Li
- State Key Laboratory of Conservation and Utilization of Subtropical Agro-Bioresources, Guangxi University, Nanning 530004, China
| | - Meiyan Chen
- State Key Laboratory of Conservation and Utilization of Subtropical Agro-Bioresources, Guangxi University, Nanning 530004, China
| | - Yangrui Li
- Key Laboratory of Sugarcane Biotechnology and Genetic Improvement (Guangxi), Ministry of Agriculture and Rural Affairs, Guangxi Key Laboratory of Sugarcane Genetic Improvement, Sugarcane Research Institute, Guangxi Academy of Agricultural Sciences, Sugarcane Research Center, Chinese Academy of Agricultural Sciences, Nanning 530007, China
| | - Xiping Yang
- State Key Laboratory of Conservation and Utilization of Subtropical Agro-Bioresources, Guangxi University, Nanning 530004, China
| | - Gemin Zhang
- Key Laboratory of Sugarcane Biotechnology and Genetic Improvement (Guangxi), Ministry of Agriculture and Rural Affairs, Guangxi Key Laboratory of Sugarcane Genetic Improvement, Sugarcane Research Institute, Guangxi Academy of Agricultural Sciences, Sugarcane Research Center, Chinese Academy of Agricultural Sciences, Nanning 530007, China
| | - Dongliang Huang
- Key Laboratory of Sugarcane Biotechnology and Genetic Improvement (Guangxi), Ministry of Agriculture and Rural Affairs, Guangxi Key Laboratory of Sugarcane Genetic Improvement, Sugarcane Research Institute, Guangxi Academy of Agricultural Sciences, Sugarcane Research Center, Chinese Academy of Agricultural Sciences, Nanning 530007, China
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Kui L, Majeed A, Wang X, Yang Z, Chen J, He L, Di Y, Li X, Qian Z, Jiao Y, Wang G, Liu L, Xu R, Gu S, Yang Q, Chen S, Lou H, Meng Y, Xie L, Xu F, Shen Q, Singh A, Gruber K, Pan Y, Hao T, Dong Y, Li F. A chromosome-level genome assembly for Erianthus fulvus provides insights into its biofuel potential and facilitates breeding for improvement of sugarcane. PLANT COMMUNICATIONS 2023:100562. [PMID: 36814384 PMCID: PMC10363513 DOI: 10.1016/j.xplc.2023.100562] [Citation(s) in RCA: 2] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 07/14/2022] [Revised: 12/21/2022] [Accepted: 02/16/2023] [Indexed: 06/18/2023]
Abstract
Erianthus produces substantial biomass, exhibits a good Brix value, and shows wide environmental adaptability, making it a potential biofuel plant. In contrast to closely related sorghum and sugarcane, Erianthus can grow in degraded soils, thus releasing pressure on agricultural lands used for biofuel production. However, the lack of genomic resources for Erianthus hinders its genetic improvement, thus limiting its potential for biofuel production. In the present study, we generated a chromosome-scale reference genome for Erianthus fulvus Nees. The genome size estimated by flow cytometry was 937 Mb, and the assembled genome size was 902 Mb, covering 96.26% of the estimated genome size. A total of 35 065 protein-coding genes were predicted, and 67.89% of the genome was found to be repetitive. A recent whole-genome duplication occurred approximately 74.10 million years ago in the E. fulvus genome. Phylogenetic analysis showed that E. fulvus is evolutionarily closer to S. spontaneum and diverged after S. bicolor. Three of the 10 chromosomes of E. fulvus formed through rearrangements of ancestral chromosomes. Phylogenetic reconstruction of the Saccharum complex revealed a polyphyletic origin of the complex and a sister relationship of E. fulvus with Saccharum sp., excluding S. arundinaceum. On the basis of the four amino acid residues that provide substrate specificity, the E. fulvus SWEET proteins were classified as mono- and disaccharide sugar transporters. Ortho-QTL genes identified for 10 biofuel-related traits may aid in the rapid screening of E. fulvus populations to enhance breeding programs for improved biofuel production. The results of this study provide valuable insights for breeding programs aimed at improving biofuel production in E. fulvus and enhancing sugarcane introgression programs.
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Affiliation(s)
- Ling Kui
- Sugarcane Research Institute of Yunnan Agricultural University, Kunming, Yunnan 650201, China; Shenzhen Qianhai Shekou Free Trade Zone Hospital, Shenzhen 518067, China
| | - Aasim Majeed
- Plant Molecular Genetics Laboratory, School of Agricultural Biotechnology, Punjab Agricultural University, Ludhiana, India
| | - Xianhong Wang
- Sugarcane Research Institute of Yunnan Agricultural University, Kunming, Yunnan 650201, China; College of Agronomy and Biotechnology of Yunnan Agricultural University, Kunming, Yunnan 650201, China; The Key Laboratory of Crop Production and Smart Agriculture of Yunnan Province, Kunming, Yunnan 650201, China
| | - Zijiang Yang
- College of Agronomy and Biotechnology of Yunnan Agricultural University, Kunming, Yunnan 650201, China
| | - Jian Chen
- International Genome Center, Jiangsu University, Zhenjiang, Jiangsu 212013, China
| | - Lilian He
- Sugarcane Research Institute of Yunnan Agricultural University, Kunming, Yunnan 650201, China; College of Agronomy and Biotechnology of Yunnan Agricultural University, Kunming, Yunnan 650201, China
| | - Yining Di
- College of Agronomy and Biotechnology of Yunnan Agricultural University, Kunming, Yunnan 650201, China
| | - Xuzhen Li
- State Key Laboratory for Conservation and Utilization of Bio-Resources in Yunnan, Yunnan Agricultural University, Kunming, Yunnan 650201, China; Yunnan Plateau Characteristic Agriculture Industry Research Institute, Kunming, Yunnan 650201, China
| | - Zhenfeng Qian
- College of Agronomy and Biotechnology of Yunnan Agricultural University, Kunming, Yunnan 650201, China
| | - Yinming Jiao
- Shenzhen Qianhai Shekou Free Trade Zone Hospital, Shenzhen 518067, China
| | - Guoyun Wang
- Shenzhen Qianhai Shekou Free Trade Zone Hospital, Shenzhen 518067, China
| | - Lufeng Liu
- Sugarcane Research Institute of Yunnan Agricultural University, Kunming, Yunnan 650201, China; The Key Laboratory of Crop Production and Smart Agriculture of Yunnan Province, Kunming, Yunnan 650201, China
| | - Rong Xu
- College of Agronomy and Biotechnology of Yunnan Agricultural University, Kunming, Yunnan 650201, China
| | - Shujie Gu
- College of Agronomy and Biotechnology of Yunnan Agricultural University, Kunming, Yunnan 650201, China
| | - Qinghui Yang
- Sugarcane Research Institute of Yunnan Agricultural University, Kunming, Yunnan 650201, China; College of Agronomy and Biotechnology of Yunnan Agricultural University, Kunming, Yunnan 650201, China
| | - Shuying Chen
- Sugarcane Research Institute of Yunnan Agricultural University, Kunming, Yunnan 650201, China; College of Agronomy and Biotechnology of Yunnan Agricultural University, Kunming, Yunnan 650201, China
| | - Hongbo Lou
- Sugarcane Research Institute of Yunnan Agricultural University, Kunming, Yunnan 650201, China; College of Agronomy and Biotechnology of Yunnan Agricultural University, Kunming, Yunnan 650201, China
| | - Yu Meng
- College of Agronomy and Biotechnology of Yunnan Agricultural University, Kunming, Yunnan 650201, China
| | - Linyan Xie
- College of Agronomy and Biotechnology of Yunnan Agricultural University, Kunming, Yunnan 650201, China
| | - Fu Xu
- College of Agronomy and Biotechnology of Yunnan Agricultural University, Kunming, Yunnan 650201, China
| | - Qingqing Shen
- College of Agronomy and Biotechnology of Yunnan Agricultural University, Kunming, Yunnan 650201, China
| | - Amit Singh
- Institute of Molecular Biosciences, University of Graz, 8010 Graz, Austria
| | - Karl Gruber
- Institute of Molecular Biosciences, University of Graz, 8010 Graz, Austria
| | - Yunbing Pan
- State Key Laboratory for Conservation and Utilization of Bio-Resources in Yunnan, Yunnan Agricultural University, Kunming, Yunnan 650201, China; Yunnan Plateau Characteristic Agriculture Industry Research Institute, Kunming, Yunnan 650201, China
| | - Tingting Hao
- State Key Laboratory for Conservation and Utilization of Bio-Resources in Yunnan, Yunnan Agricultural University, Kunming, Yunnan 650201, China; Yunnan Plateau Characteristic Agriculture Industry Research Institute, Kunming, Yunnan 650201, China
| | - Yang Dong
- State Key Laboratory for Conservation and Utilization of Bio-Resources in Yunnan, Yunnan Agricultural University, Kunming, Yunnan 650201, China; Yunnan Plateau Characteristic Agriculture Industry Research Institute, Kunming, Yunnan 650201, China.
| | - Fusheng Li
- Sugarcane Research Institute of Yunnan Agricultural University, Kunming, Yunnan 650201, China; College of Agronomy and Biotechnology of Yunnan Agricultural University, Kunming, Yunnan 650201, China; The Key Laboratory of Crop Production and Smart Agriculture of Yunnan Province, Kunming, Yunnan 650201, China.
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Wang Y, Li R, Chen B. Cytogenetic Characterization and Metabolomic Differences of Full-Sib Progenies of Saccharum spp. PLANTS (BASEL, SWITZERLAND) 2023; 12:810. [PMID: 36840158 PMCID: PMC9968213 DOI: 10.3390/plants12040810] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Received: 01/09/2023] [Revised: 02/01/2023] [Accepted: 02/02/2023] [Indexed: 06/18/2023]
Abstract
Sugarcane smut is a worldwide fungal disease. Disease resistance breeding is the most economical and effective measure to prevent and control sugarcane smut. The cytogenetic characteristics and metabolomic differences of sugarcane F1s are closely related to disease resistance. Zhongzhe 1 and G160 sugarcane from the same parents (ROC25 and Yunzhe89-7) were used; the plants were grown in accordance with the barrel method. When the seedlings had 4-5 leaves, genomic in situ hybridization (GISH) was performed; digoxigenin (DIG)-labeled female parental (ROC25)DNA and biotin-labeled male parental (Yunzhe89-7) DNA were used as probes, and the karyotypes of two hybrids were analyzed. The new sugarcane smut-resistant variety (Zhongzhe 1) and the susceptible variety (G160) derived from the same parent were analyzed via gas chromatography-mass spectrometry technology (GC-MS) to compare the metabolomic differences between them. GISH analysis revealed that the chromosome ploidy number of Zhongzhe 1 sugarcane and G160 sugarcane were 114 and 110, respectively. However, the two contain different numbers of chromosomes from the female (ROC25) and male (Yunzhe89-7) parents. Moreover, 258 significantly changed metabolites were identified in smut-resistant Zhongzhe 1, as compared with the smut-susceptible G160 sugarcane: 56 flavonoids, 52 phenolic acids, 30 lipids, 26 organic acids, 26 amino acids and derivatives, 19 nucleotides and derivatives, 5 alkaloids, 9 terpenoids, and 35 others. Multivariate statistical analysis revealed a distinct difference in metabolic pathways between Zhongzhe 1 sugarcane and G160, and both of these varieties had unique functional metabolites. Differences in chromosome composition may constitute the genetic basis for the difference in resistance to smut disease between Zhongzhe 1 sugarcane and G160 sugarcane, and a high accumulation of flavonoids, lipids, terpenoids and tannins may constitute the basis of resistance to smut disease for the Zhongzhe 1 variety.
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Affiliation(s)
- Yi Wang
- State Key Laboratory for Conservation and Utilization of Subtropical Agro-Bioresources, Guangxi University, Nanning 530004, China
- College of Horticulture and Landscape Architecture, Zhongkai University of Agriculture and Engineering, Guangzhou 510225, China
| | - Ru Li
- State Key Laboratory for Conservation and Utilization of Subtropical Agro-Bioresources, Guangxi University, Nanning 530004, China
| | - Baoshan Chen
- State Key Laboratory for Conservation and Utilization of Subtropical Agro-Bioresources, Guangxi University, Nanning 530004, China
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Wu J, Zhang M, Liu J, Huang Y, Xu L, Deng Z, Zhao X. Efficient Anchoring of Erianthus arundinaceus Chromatin Introgressed into Sugarcane by Specific Molecular Markers. Int J Mol Sci 2022; 23:ijms23169435. [PMID: 36012702 PMCID: PMC9408830 DOI: 10.3390/ijms23169435] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/08/2022] [Revised: 08/18/2022] [Accepted: 08/18/2022] [Indexed: 11/24/2022] Open
Abstract
Erianthus arundinaceus is a valuable gene reservoir for sugarcane improvement. However, insufficient molecular markers for high-accuracy identification and tracking of the introgression status of E. arundinaceus chromatin impede sugarcane breeding. Fortunately, suppression subtractive hybridization (SSH) technology provides an excellent opportunity for the development of high-throughput E. arundinaceus-specific molecular markers at a reasonable cost. In this study, we constructed a SSH library of E. arundinaceus. In total, 288 clones of E. arundinaceus-specific repetitive sequences were screened out and their distribution patterns on chromosomes were characterized by fluorescence in situ hybridization (FISH). A subtelomeric repetitive sequence Ea086 and a diffusive repetitive sequence Ea009, plus 45S rDNA-bearing E. arundinaceus chromosome repetitive sequence EaITS were developed as E. arundinaceus-specific molecular markers, namely, Ea086-128, Ea009-257, and EaITS-278, covering all the E. arundinaceus chromosomes for high-accuracy identification of putative progeny. Both Ea086-128 and Ea009-257 were successfully applied to identify the authenticity of F1, BC1, BC2, BC3, and BC4 progeny between sugarcane and E. arundinaceus. In addition, EaITS-278 was a 45S rDNA-bearing E. arundinaceus chromosome-specific molecular marker for rapid tracking of the inherited status of this chromosome in a sugarcane background. Three BC3 progeny had apparently lost the 45S rDNA-bearing E. arundinaceus chromosome. We reported herein a highly effective and reliable SSH-based technology for discovery of high-throughput E. arundinaceus-specific sequences bearing high potential as molecular markers. Given its reliability and savings in time and efforts, the method is also suitable for development of species-specific molecular markers for other important wild relatives to accelerate introgression of wild relatives into sugarcane.
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Affiliation(s)
- Jiayun Wu
- National Engineering Research Center for Sugarcane, Fujian Agriculture and Forestry University, Fuzhou 350002, China
- Guangdong Sugarcane Genetic Improvement Engineering Center, Institute of Nanfan and Seed Industry, Guangdong Academy of Sciences, Guangzhou 510316, China
| | - Mingxiao Zhang
- National Engineering Research Center for Sugarcane, Fujian Agriculture and Forestry University, Fuzhou 350002, China
| | - Jiarui Liu
- National Engineering Research Center for Sugarcane, Fujian Agriculture and Forestry University, Fuzhou 350002, China
| | - Yongji Huang
- National Engineering Research Center for Sugarcane, Fujian Agriculture and Forestry University, Fuzhou 350002, China
| | - Liangnian Xu
- National Engineering Research Center for Sugarcane, Fujian Agriculture and Forestry University, Fuzhou 350002, China
| | - Zuhu Deng
- National Engineering Research Center for Sugarcane, Fujian Agriculture and Forestry University, Fuzhou 350002, China
- State Key Laboratory for Protection and Utilization of Subtropical Agro-Bioresources, Guangxi University, Nanning 530004, China
- Key Lab of Sugarcane Biology and Genetic Breeding, Ministry of Agriculture, Fujian Agriculture and Forestry University, Fuzhou 350002, China
- Correspondence: (Z.D.); (X.Z.)
| | - Xinwang Zhao
- National Engineering Research Center for Sugarcane, Fujian Agriculture and Forestry University, Fuzhou 350002, China
- State Key Laboratory for Protection and Utilization of Subtropical Agro-Bioresources, Guangxi University, Nanning 530004, China
- Key Lab of Sugarcane Biology and Genetic Breeding, Ministry of Agriculture, Fujian Agriculture and Forestry University, Fuzhou 350002, China
- Correspondence: (Z.D.); (X.Z.)
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Comparative Analysis of Chloroplast Genome in Saccharum spp. and Related Members of ‘Saccharum Complex’. Int J Mol Sci 2022; 23:ijms23147661. [PMID: 35887005 PMCID: PMC9315705 DOI: 10.3390/ijms23147661] [Citation(s) in RCA: 6] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/07/2022] [Revised: 07/05/2022] [Accepted: 07/05/2022] [Indexed: 02/04/2023] Open
Abstract
High ploids of the sugarcane nuclear genome limit its genomic studies, whereas its chloroplast genome is small and conserved, which is suitable for phylogenetic studies and molecular marker development. Here, we applied whole genome sequencing technology to sequence and assemble chloroplast genomes of eight species of the ‘Saccharum Complex’, and elucidated their sequence variations. In total, 19 accessions were sequenced, and 23 chloroplast genomes were assembled, including 6 species of Saccharum (among them, S. robustum, S. sinense, and S. barberi firstly reported in this study) and 2 sugarcane relative species, Tripidium arundinaceum and Narenga porphyrocoma. The plastid phylogenetic signal demonstrated that S. officinarum and S. robustum shared a common ancestor, and that the cytoplasmic origins of S. sinense and S. barberi were much more ancient than the S. offcinarum/S. robustum linage. Overall, 14 markers were developed, including 9 InDel markers for distinguishing Saccharum from its relative species, 4 dCAPS markers for distinguishing S. officinarum from S. robustum, and 1 dCAPS marker for distinguishing S. sinense and S. barberi from other species. The results obtained from our studies will contribute to the understanding of the classification and plastome evolution of Saccharinae, and the molecular markers developed have demonstrated their highly discriminatory power in Saccharum and relative species.
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Tsuruta SI, Srithawong S, Sakuanrungsirikul S, Ebina M, Kobayashi M, Terajima Y, Tippayawat A, Ponragdee W. Erianthus germplasm collection in Thailand: genetic structure and phylogenetic aspects of tetraploid and hexaploid accessions. BMC PLANT BIOLOGY 2022; 22:45. [PMID: 35065606 PMCID: PMC8783461 DOI: 10.1186/s12870-021-03418-3] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 03/30/2021] [Accepted: 12/24/2021] [Indexed: 06/05/2023]
Abstract
BACKGROUND The genus Erianthus, which belongs to the "Saccharum complex", includes C4 warm-season grasses. Erianthus species are widely distributed throughout Southeast Asia, East Asia and South Asia. Erianthus arundinaceus (Retz.) Jeswiet is highly adaptable to the environment, has a high percentage of dry matter, and is highly productive. Recently, this species has attracted attention as a novel bioenergy crop and as a breeding material for sugarcane improvement. Such interest in E. arundinaceus has accelerated the collection and conservation of its genetic resources, mainly in Asian countries, and also evaluation of morphological, agricultural, and cytogenetic features in germplasm collections. In Thailand, genetic resources of E. arundinaceus have been collected over the past 20 years and their phenotypic traits have been evaluated. However, the genetic differences and relatedness of the germplasms are not fully understood. RESULTS A set of 41 primer pairs for nuclear simple sequence repeats (SSRs) developed from E. arundinaceus were used to assess the genetic diversity of 121 Erianthus germplasms collected in Thailand; of these primer pairs, 28 detected a total of 316 alleles. A Bayesian clustering approach with these alleles classified the accessions into four main groups, generally corresponding to the previous classification based on phenotypic analysis. The results of principal coordinate analysis and phylogenetic analysis of the 121 accessions on the basis of the SSR markers showed the same trend as Bayesian clustering, whereas sequence variations of three non-coding regions of chloroplast DNA revealed eight haplotypes among the accessions. The analysis of genetic structure and phylogenetic relationships, however, found some accessions whose classification contradicted the results of previous phenotypic classification. CONCLUSIONS The molecular approach used in this study characterized the genetic diversity and relatedness of Erianthus germplasms collected across Thailand. This knowledge would allow efficient maintenance and conservation of the genetic resources of this grass and would help to use Erianthus species as breeding materials for development of novel bioenergy crops and sugarcane improvement.
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Affiliation(s)
- Shin-Ichi Tsuruta
- Tropical Agriculture Research Front, Japan International Research Center for Agricultural Sciences (JIRCAS), Ishigaki, Okinawa, 907-0002, Japan.
| | - Suparat Srithawong
- Department of Agriculture, Khon Kaen Field Crops Research Center (KKFCRC), Khon Kaen, 40000, Thailand
- Present address: Biotechnology Research and Development Office (BIRDO), Department of Agriculture, Pathum Thani, 12110, Thailand
| | | | - Masumi Ebina
- Institute of Livestock and Grassland Science, National Agriculture and Food Research Organization (NARO), Nasushiobara, Tochigi, 329-2793, Japan
| | - Makoto Kobayashi
- Institute of Livestock and Grassland Science, National Agriculture and Food Research Organization (NARO), Nasushiobara, Tochigi, 329-2793, Japan
| | - Yoshifumi Terajima
- Tropical Agriculture Research Front, Japan International Research Center for Agricultural Sciences (JIRCAS), Ishigaki, Okinawa, 907-0002, Japan
| | - Amarawan Tippayawat
- Department of Agriculture, Khon Kaen Field Crops Research Center (KKFCRC), Khon Kaen, 40000, Thailand
- Present address: Department of Agriculture, Faculty of Agriculture, Khon Kaen University, Khon Kaen, 40002, Thailand
| | - Werapon Ponragdee
- Department of Agriculture, Khon Kaen Field Crops Research Center (KKFCRC), Khon Kaen, 40000, Thailand
- Present address: Field and Renewable Energy Crops Research Institute (FCRI), Department of Agriculture, Bangkok, 10900, Thailand
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8
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Baiakhmetov E, Ryzhakova D, Gudkova PD, Nobis M. Evidence for extensive hybridisation and past introgression events in feather grasses using genome-wide SNP genotyping. BMC PLANT BIOLOGY 2021; 21:505. [PMID: 34724894 PMCID: PMC8559405 DOI: 10.1186/s12870-021-03287-w] [Citation(s) in RCA: 8] [Impact Index Per Article: 2.7] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 04/23/2021] [Accepted: 10/20/2021] [Indexed: 06/03/2023]
Abstract
BACKGROUND The proper identification of feather grasses in nature is often limited due to phenotypic variability and high morphological similarity between many species. Among plausible factors influencing this issue are hybridisation and introgression recently detected in the genus. Nonetheless, to date, only a bounded set of taxa have been investigated using integrative taxonomy combining morphological and molecular data. Here, we report the first large-scale study on five feather grass species across several hybrid zones in Russia and Central Asia. In total, 302 specimens were sampled in the field and classified based on the current descriptions of these taxa. They were then genotyped with high density genome-wide markers and measured based on a set of morphological characters to delimitate species and assess levels of hybridisation and introgression. Moreover, we tested species for past introgression and estimated divergence times between them. RESULTS Our findings demonstrated that 250 specimens represent five distinct species: S. baicalensis, S. capillata, S. glareosa, S. grandis and S. krylovii. The remaining 52 individuals provided evidence for extensive hybridisation between S. capillata and S. baicalensis, S. capillata and S. krylovii, S. baicalensis and S. krylovii, as well as to a lesser extent between S. grandis and S. krylovii, S. grandis and S. baicalensis. We detected past reticulation events between S. baicalensis, S. krylovii, S. grandis and inferred that diversification within species S. capillata, S. baicalensis, S. krylovii and S. grandis started ca. 130-96 kya. In addition, the assessment of genetic population structure revealed signs of contemporary gene flow between populations across species from the section Leiostipa, despite significant geographical distances between some of them. Lastly, we concluded that only 5 out of 52 hybrid taxa were properly identified solely based on morphology. CONCLUSIONS Our results support the hypothesis that hybridisation is an important mechanism driving evolution in Stipa. As an outcome, this phenomenon complicates identification of hybrid taxa in the field using morphological characters alone. Thus, integrative taxonomy seems to be the only reliable way to properly resolve the phylogenetic issue of Stipa. Moreover, we believe that feather grasses may be a suitable genus to study hybridisation and introgression events in nature.
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Affiliation(s)
- Evgenii Baiakhmetov
- Institute of Botany, Faculty of Biology, Jagiellonian University, Gronostajowa 3, 30-387, Kraków, Poland.
- Research laboratory 'Herbarium', National Research Tomsk State University, Lenin 36 Ave., 634050, Tomsk, Russia.
| | - Daria Ryzhakova
- Research laboratory 'Herbarium', National Research Tomsk State University, Lenin 36 Ave., 634050, Tomsk, Russia
- Department of Biology, Altai State University, Lenin 61 Ave., 656049, Barnaul, Russia
| | - Polina D Gudkova
- Research laboratory 'Herbarium', National Research Tomsk State University, Lenin 36 Ave., 634050, Tomsk, Russia
- Department of Biology, Altai State University, Lenin 61 Ave., 656049, Barnaul, Russia
| | - Marcin Nobis
- Institute of Botany, Faculty of Biology, Jagiellonian University, Gronostajowa 3, 30-387, Kraków, Poland.
- Research laboratory 'Herbarium', National Research Tomsk State University, Lenin 36 Ave., 634050, Tomsk, Russia.
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9
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Aycan M, Baslam M, Asiloglu R, Mitsui T, Yildiz M. Development of new high-salt tolerant bread wheat (Triticum aestivum L.) genotypes and insight into the tolerance mechanisms. PLANT PHYSIOLOGY AND BIOCHEMISTRY : PPB 2021; 166:314-327. [PMID: 34147724 DOI: 10.1016/j.plaphy.2021.05.041] [Citation(s) in RCA: 4] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 03/14/2021] [Accepted: 05/24/2021] [Indexed: 05/24/2023]
Abstract
The loss of cropland soils, climate change, and population growth are directly affecting the food supply. Given the higher incidence of salinity and extreme events, the cereal performance and yield are substantially hampered. Wheat is forecast to decline over the coming years due to the salinization widespread as one of the oldest and most environmental severe constraints facing global cereal production. To increase salinity tolerance of wheat, in this study, we developed two new salt-tolerant bread wheats, named 'Maycan' and 'Yıldız'. The salinity tolerance of these lines, their parents, and a salt-sensitive cultivar has been tested from measurements of physiological, biochemical, and genes associated with osmotic adjustment/plant tolerance in cultures containing 0 and 150 mM NaCl at the seedling stage. Differential growth reductions to increased salinity were observed in the salt-sensitive cultivar, with those newly developed exhibiting significantly greater root length, growth of shoot and water content as salinity tolerances overall than their parents. 'Maycan' and 'Yıldız' had higher osmoregulator proline content and antioxidants enzyme activities under salinity than the other bread wheat tested. Notably, an important upregulation in the expression of genes related to cellular ion balance, osmolytes accumulation, and abscisic acid was observed in both new wheat germplasms, which may improve salt tolerance. These finding revealed that 'Maycan' and 'Yıldız' exhibit high-salt tolerance at the seedling stage and differing in their tolerance mechanisms to the other tested cultivars, thereby providing an opportunity for their exploitation as modern bread wheats.
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Affiliation(s)
- Murat Aycan
- Laboratory of Biochemistry, Faculty of Agriculture, Niigata University, Niigata, Japan
| | - Marouane Baslam
- Laboratory of Biochemistry, Faculty of Agriculture, Niigata University, Niigata, Japan
| | - Rasit Asiloglu
- Faculty of Agriculture, Niigata University, Niigata, Japan
| | - Toshiaki Mitsui
- Laboratory of Biochemistry, Faculty of Agriculture, Niigata University, Niigata, Japan
| | - Mustafa Yildiz
- Department of Field Crops, Faculty of Agriculture, Ankara University, Ankara, Turkey.
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10
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Yu F, Chai J, Li X, Yu Z, Yang R, Ding X, Wang Q, Wu J, Yang X, Deng Z. Chromosomal Characterization of Tripidium arundinaceum Revealed by Oligo-FISH. Int J Mol Sci 2021; 22:ijms22168539. [PMID: 34445245 PMCID: PMC8395171 DOI: 10.3390/ijms22168539] [Citation(s) in RCA: 3] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/03/2021] [Revised: 08/06/2021] [Accepted: 08/07/2021] [Indexed: 11/29/2022] Open
Abstract
Sugarcane is of important economic value for producing sugar and bioethanol. Tripidium arundinaceum (old name: Erianthus arundinaceum) is an intergeneric wild species of sugarcane that has desirable resistance traits for improving sugarcane varieties. However, the scarcity of chromosome markers has hindered the cytogenetic study of T. arundinaceum. Here we applied maize chromosome painting probes (MCPs) to identify chromosomes in sorghum and T. arundinaceum using a repeated fluorescence in situ hybridization (FISH) system. Sequential FISH revealed that these MCPs can be used as reliable chromosome markers for T. arundinaceum, even though T. arundinaceum has diverged from maize over 18 MYs (million years). Using these MCPs, we identified T. arundinaceum chromosomes based on their sequence similarity compared to sorghum and labeled them 1 through 10. Then, the karyotype of T. arundinaceum was established by multiple oligo-FISH. Furthermore, FISH results revealed that 5S rDNA and 35S rDNA are localized on chromosomes 5 and 6, respectively, in T. arundinaceum. Altogether, these results represent an essential step for further cytogenetic research of T. arundinaceum in sugarcane breeding.
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Affiliation(s)
- Fan Yu
- National Engineering Research Center for Sugarcane, Fujian Agriculture and Forestry University, Fuzhou 350002, China; (F.Y.); (J.C.); (X.L.); (R.Y.); (X.D.); (Q.W.)
- Key Lab of Sugarcane Biology and Genetic Breeding, Ministry of Agriculture, Fujian Agriculture and Forestry University, Fuzhou 350002, China
| | - Jin Chai
- National Engineering Research Center for Sugarcane, Fujian Agriculture and Forestry University, Fuzhou 350002, China; (F.Y.); (J.C.); (X.L.); (R.Y.); (X.D.); (Q.W.)
- Key Lab of Sugarcane Biology and Genetic Breeding, Ministry of Agriculture, Fujian Agriculture and Forestry University, Fuzhou 350002, China
| | - Xueting Li
- National Engineering Research Center for Sugarcane, Fujian Agriculture and Forestry University, Fuzhou 350002, China; (F.Y.); (J.C.); (X.L.); (R.Y.); (X.D.); (Q.W.)
- Key Lab of Sugarcane Biology and Genetic Breeding, Ministry of Agriculture, Fujian Agriculture and Forestry University, Fuzhou 350002, China
| | - Zehuai Yu
- State Key Laboratory for Protection and Utilization of Subtropical Agro-bioresources, Guangxi University, Nanning 530004, China; (Z.Y.); (X.Y.)
| | - Ruiting Yang
- National Engineering Research Center for Sugarcane, Fujian Agriculture and Forestry University, Fuzhou 350002, China; (F.Y.); (J.C.); (X.L.); (R.Y.); (X.D.); (Q.W.)
- Key Lab of Sugarcane Biology and Genetic Breeding, Ministry of Agriculture, Fujian Agriculture and Forestry University, Fuzhou 350002, China
| | - Xueer Ding
- National Engineering Research Center for Sugarcane, Fujian Agriculture and Forestry University, Fuzhou 350002, China; (F.Y.); (J.C.); (X.L.); (R.Y.); (X.D.); (Q.W.)
- Key Lab of Sugarcane Biology and Genetic Breeding, Ministry of Agriculture, Fujian Agriculture and Forestry University, Fuzhou 350002, China
| | - Qiusong Wang
- National Engineering Research Center for Sugarcane, Fujian Agriculture and Forestry University, Fuzhou 350002, China; (F.Y.); (J.C.); (X.L.); (R.Y.); (X.D.); (Q.W.)
- Key Lab of Sugarcane Biology and Genetic Breeding, Ministry of Agriculture, Fujian Agriculture and Forestry University, Fuzhou 350002, China
| | - Jiayun Wu
- National Engineering Research Center for Sugarcane, Fujian Agriculture and Forestry University, Fuzhou 350002, China; (F.Y.); (J.C.); (X.L.); (R.Y.); (X.D.); (Q.W.)
- Institute of Nanfan & Seed Industry, Guangdong Academy of Sciences, Guangzhou 510316, China
- Correspondence: (J.W.); (Z.D.)
| | - Xiping Yang
- State Key Laboratory for Protection and Utilization of Subtropical Agro-bioresources, Guangxi University, Nanning 530004, China; (Z.Y.); (X.Y.)
| | - Zuhu Deng
- National Engineering Research Center for Sugarcane, Fujian Agriculture and Forestry University, Fuzhou 350002, China; (F.Y.); (J.C.); (X.L.); (R.Y.); (X.D.); (Q.W.)
- Key Lab of Sugarcane Biology and Genetic Breeding, Ministry of Agriculture, Fujian Agriculture and Forestry University, Fuzhou 350002, China
- State Key Laboratory for Protection and Utilization of Subtropical Agro-bioresources, Guangxi University, Nanning 530004, China; (Z.Y.); (X.Y.)
- Correspondence: (J.W.); (Z.D.)
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11
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Li X, Huang F, Chai J, Wang Q, Yu F, Huang Y, Wu J, Wang Q, Xu L, Zhang M, Deng Z. Chromosome behavior during meiosis in pollen mother cells from Saccharum officinarum × Erianthus arundinaceus F 1 hybrids. BMC PLANT BIOLOGY 2021; 21:139. [PMID: 33726673 PMCID: PMC7968283 DOI: 10.1186/s12870-021-02911-z] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Received: 12/24/2019] [Accepted: 03/03/2021] [Indexed: 06/12/2023]
Abstract
BACKGROUND In recent years, sugarcane has attracted increasing attention as an energy crop. Wild resources are widely used to improve the narrow genetic base of sugarcane. However, the infertility of F1 hybrids between Saccharum officinarum (S. officinarum) and Erianthus arundinaceus (E. arundinaceus) has hindered sugarcane breeding efforts. To discover the cause of this infertility, we studied the hybridization process from a cytological perspective. RESULTS We examined the meiotic process of pollen mother cells (PMCs) in three F1 hybrids between S. officinarum and E. arundinaceus. Cytological analysis showed that the male parents, Hainan 92-77 and Hainan 92-105, had normal meiosis. However, the meiosis process in F1 hybrids showed various abnormal phenomena, including lagging chromosomes, micronuclei, uneven segregation, chromosome bridges, and inability to form cell plates. Genomic in situ hybridization (GISH) showed unequal chromatin distribution during cell division. Interestingly, 96.70% of lagging chromosomes were from E. arundinaceus. Furthermore, fluorescence in situ hybridization (FISH) was performed using 45S rDNA and 5S rDNA as probes. Either 45S rDNA or 5S rDNA sites were lost during abnormal meiosis, and results of unequal chromosomal separation were also clearly observed in tetrads. CONCLUSIONS Using cytogenetic analysis, a large number of meiotic abnormalities were observed in F1. GISH further confirmed that 96.70% of the lagging chromosomes were from E. arundinaceus. Chromosome loss was found by further investigation of repeat sequences. Our findings provide insight into sugarcane chromosome inheritance to aid innovation and utilization in sugarcane germplasm resources.
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Affiliation(s)
- Xueting Li
- National Engineering Research Center for Sugarcane, Fujian Agriculture and Forestry University, Fuzhou, 350002, Fujian, China
| | - Fei Huang
- National Engineering Research Center for Sugarcane, Fujian Agriculture and Forestry University, Fuzhou, 350002, Fujian, China
| | - Jin Chai
- National Engineering Research Center for Sugarcane, Fujian Agriculture and Forestry University, Fuzhou, 350002, Fujian, China
| | - Qiusong Wang
- National Engineering Research Center for Sugarcane, Fujian Agriculture and Forestry University, Fuzhou, 350002, Fujian, China
| | - Fan Yu
- National Engineering Research Center for Sugarcane, Fujian Agriculture and Forestry University, Fuzhou, 350002, Fujian, China
| | - Yongji Huang
- National Engineering Research Center for Sugarcane, Fujian Agriculture and Forestry University, Fuzhou, 350002, Fujian, China
| | - Jiayun Wu
- Guangdong Key Laboratory of Sugarcane Improvement and Biorefinery, Guangdong Provincial Bioengineering Institute, Guangzhou, China
| | - Qinnan Wang
- Key Lab of Sugarcane Biology and Genetic Breeding, Ministry of Agriculture, Fujian Agriculture and Forestry University, Fuzhou, 350002, Fujian, China
| | - Liangnian Xu
- National Engineering Research Center for Sugarcane, Fujian Agriculture and Forestry University, Fuzhou, 350002, Fujian, China
- Key Lab of Sugarcane Biology and Genetic Breeding, Ministry of Agriculture, Fujian Agriculture and Forestry University, Fuzhou, 350002, Fujian, China
| | - Muqing Zhang
- State Key Laboratory for Protection and Utilization of Subtropical Agro-Bioresources, Guangxi University, Nanning, 530004, China
| | - Zuhu Deng
- National Engineering Research Center for Sugarcane, Fujian Agriculture and Forestry University, Fuzhou, 350002, Fujian, China.
- Key Lab of Sugarcane Biology and Genetic Breeding, Ministry of Agriculture, Fujian Agriculture and Forestry University, Fuzhou, 350002, Fujian, China.
- State Key Laboratory for Protection and Utilization of Subtropical Agro-Bioresources, Guangxi University, Nanning, 530004, China.
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12
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Sobhakumari VP, Mohanraj K, Nair NV, Mahadevaswamy HK, Ram B. Cytogenetic and Molecular Approaches to Detect Alien Chromosome Introgression and Its Impact in Three Successive Generations of Erianthus procerus × Saccharum. CYTOLOGIA 2020. [DOI: 10.1508/cytologia.85.341] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/16/2022]
Affiliation(s)
| | | | | | | | - Bakshi Ram
- Crop Improvement Division, ICAR-Sugarcane Breeding Institute
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13
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Baiakhmetov E, Nowak A, Gudkova PD, Nobis M. Morphological and genome-wide evidence for natural hybridisation within the genus Stipa (Poaceae). Sci Rep 2020; 10:13803. [PMID: 32796878 PMCID: PMC7427808 DOI: 10.1038/s41598-020-70582-1] [Citation(s) in RCA: 12] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [Abstract] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/18/2020] [Accepted: 07/31/2020] [Indexed: 11/17/2022] Open
Abstract
Hybridisation in the wild between closely related species is a common mechanism of speciation in the plant kingdom and, in particular, in the grass family. Here we explore the potential for natural hybridisation in Stipa (one of the largest genera in Poaceae) between genetically distant species at their distribution edges in Mountains of Central Asia using integrative taxonomy. Our research highlights the applicability of classical morphological and genome reduction approaches in studies on wild plant species. The obtained results revealed a new nothospecies, Stipa × lazkovii, which exhibits intermediate characters to S. krylovii and S. bungeana. A high-density DArTseq assay disclosed that S. × lazkovii is an F1 hybrid, and established that the plastid and mitochondrial DNA was inherited from S. bungeana. In addition, molecular markers detected a hybridisation event between morphologically and genetically distant species S. bungeana and probably S. glareosa. Moreover, our findings demonstrated an uncertainty on the taxonomic status of S. bungeana that currently belongs to the section Leiostipa, but it is genetically closer to S. breviflora from the section Barbatae. Finally, we noticed a discrepancy between the current molecular data with the previous findings on S. capillata and S. sareptana.
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Affiliation(s)
- Evgenii Baiakhmetov
- Institute of Botany, Faculty of Biology, Jagiellonian University, Gronostajowa 3, 30-387, Kraków, Poland. .,Research Laboratory 'Herbarium', National Research Tomsk State University, Lenin 36 Ave, 634050, Tomsk, Russia.
| | - Arkadiusz Nowak
- Botanical Garden-Centre for Biological Diversity Conservation, Polish Academy of Sciences, Prawdziwka 2, 02-973, Warszawa, Poland.,Institute of Biology, Opole University, Oleska 22, 45-052, Opole, Poland
| | - Polina D Gudkova
- Research Laboratory 'Herbarium', National Research Tomsk State University, Lenin 36 Ave, 634050, Tomsk, Russia.,Department of Biology, Altai State University, Lenin 61 Ave, 656049, Barnaul, Russia
| | - Marcin Nobis
- Institute of Botany, Faculty of Biology, Jagiellonian University, Gronostajowa 3, 30-387, Kraków, Poland.
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