1
views
0
recommends
+1 Recommend
0 collections
    0
    shares
      • Record: found
      • Abstract: found
      • Article: found
      Is Open Access

      Comparative transcriptome study of switchgrass ( Panicum virgatum L.) homologous autopolyploid and its parental amphidiploid responding to consistent drought stress

      research-article

      Read this article at

      Bookmark
          There is no author summary for this article yet. Authors can add summaries to their articles on ScienceOpen to make them more accessible to a non-specialist audience.

          Abstract

          Background

          Newly formed polyploids may experience short-term adaptative changes in their genome that may enhance the resistance of plants to stress. Considering the increasingly serious effects of drought on biofuel plants, whole genome duplication (WGD) may be an efficient way to proceed with drought resistant breeding. However, the molecular mechanism of drought response before/after WGD remains largely unclear.

          Result

          We found that autoploid switchgrass ( Panicum virgatum L.) 8X Alamo had higher drought tolerance than its parent amphidiploid 4X Alamo using physiological tests. RNA and microRNA sequencing at different time points during drought were then conducted on 8X Alamo and 4X Alamo switchgrass. The specific differentially expressed transcripts (DETs) that related to drought stress (DS) in 8X Alamo were enriched in ribonucleoside and ribonucleotide binding, while the drought-related DETs in 4X Alamo were enriched in structural molecule activity. Ploidy-related DETs were primarily associated with signal transduction mechanisms. Weighted gene co-expression network analysis (WGCNA) detected three significant DS-related modules, and their DETs were primarily enriched in biosynthesis process and photosynthesis. A total of 26 differentially expressed microRNAs (DEmiRs) were detected, and among them, sbi-microRNA 399b was only expressed in 8X Alamo. The targets of microRNAs that were responded to polyploidization and drought stress all contained cytochrome P450 and superoxide dismutase genes.

          Conclusions

          This study explored the drought response of 8X and 4X Alamo switchgrass on both physiological and transcriptional levels, and provided experimental and sequencing data basis for a short-term adaptability study and drought-resistant biofuel plant breeding.

          Related collections

          Most cited references81

          • Record: found
          • Abstract: found
          • Article: found
          Is Open Access

          miRDeep2 accurately identifies known and hundreds of novel microRNA genes in seven animal clades

          microRNAs (miRNAs) are a large class of small non-coding RNAs which post-transcriptionally regulate the expression of a large fraction of all animal genes and are important in a wide range of biological processes. Recent advances in high-throughput sequencing allow miRNA detection at unprecedented sensitivity, but the computational task of accurately identifying the miRNAs in the background of sequenced RNAs remains challenging. For this purpose, we have designed miRDeep2, a substantially improved algorithm which identifies canonical and non-canonical miRNAs such as those derived from transposable elements and informs on high-confidence candidates that are detected in multiple independent samples. Analyzing data from seven animal species representing the major animal clades, miRDeep2 identified miRNAs with an accuracy of 98.6–99.9% and reported hundreds of novel miRNAs. To test the accuracy of miRDeep2, we knocked down the miRNA biogenesis pathway in a human cell line and sequenced small RNAs before and after. The vast majority of the >100 novel miRNAs expressed in this cell line were indeed specifically downregulated, validating most miRDeep2 predictions. Last, a new miRNA expression profiling routine, low time and memory usage and user-friendly interactive graphic output can make miRDeep2 useful to a wide range of researchers.
            Bookmark
            • Record: found
            • Abstract: found
            • Article: not found

            Influence of extreme weather disasters on global crop production.

            In recent years, several extreme weather disasters have partially or completely damaged regional crop production. While detailed regional accounts of the effects of extreme weather disasters exist, the global scale effects of droughts, floods and extreme temperature on crop production are yet to be quantified. Here we estimate for the first time, to our knowledge, national cereal production losses across the globe resulting from reported extreme weather disasters during 1964-2007. We show that droughts and extreme heat significantly reduced national cereal production by 9-10%, whereas our analysis could not identify an effect from floods and extreme cold in the national data. Analysing the underlying processes, we find that production losses due to droughts were associated with a reduction in both harvested area and yields, whereas extreme heat mainly decreased cereal yields. Furthermore, the results highlight ~7% greater production damage from more recent droughts and 8-11% more damage in developed countries than in developing ones. Our findings may help to guide agricultural priorities in international disaster risk reduction and adaptation efforts.
              Bookmark
              • Record: found
              • Abstract: not found
              • Article: not found

              Photoperoxidation in isolated chloroplasts. I. Kinetics and stoichiometry of fatty acid peroxidation.

                Bookmark

                Author and article information

                Contributors
                peilin.chen@hu-berlin.de
                chenjing123ing@163.com
                summin1028@163.com
                yanhd@vt.edu
                feng198821@hotmail.com
                wubingchao94@163.com
                zhangxq@sicau.edu.cn
                wangqiqi_shan@126.com
                huanglinkai@sicau.edu.cn
                Journal
                Biotechnol Biofuels
                Biotechnol Biofuels
                Biotechnology for Biofuels
                BioMed Central (London )
                1754-6834
                15 October 2020
                15 October 2020
                2020
                : 13
                : 170
                Affiliations
                [1 ]GRID grid.80510.3c, ISNI 0000 0001 0185 3134, Department of Grassland Science, Animal Science and Technology College, , Sichuan Agricultural University, ; Chengdu, 611130 China
                [2 ]GRID grid.7468.d, ISNI 0000 0001 2248 7639, Institute for Biology, Plant Cell and Molecular Biology, Humboldt-Universität zu Berlin, ; 10115 Berlin, Germany
                [3 ]GRID grid.438526.e, ISNI 0000 0001 0694 4940, Department of Horticulture, , Virginia Tech, ; Blacksburg, VA 24061 USA
                Author information
                http://orcid.org/0000-0001-6622-5841
                Article
                1810
                10.1186/s13068-020-01810-z
                7559793
                33072185
                2488a464-61f7-46a2-9fab-fa3dfc9f69ab
                © The Author(s) 2020

                Open AccessThis article is licensed under a Creative Commons Attribution 4.0 International License, which permits use, sharing, adaptation, distribution and reproduction in any medium or format, as long as you give appropriate credit to the original author(s) and the source, provide a link to the Creative Commons licence, and indicate if changes were made. The images or other third party material in this article are included in the article's Creative Commons licence, unless indicated otherwise in a credit line to the material. If material is not included in the article's Creative Commons licence and your intended use is not permitted by statutory regulation or exceeds the permitted use, you will need to obtain permission directly from the copyright holder. To view a copy of this licence, visit http://creativecommons.org/licenses/by/4.0/. The Creative Commons Public Domain Dedication waiver ( http://creativecommons.org/publicdomain/zero/1.0/) applies to the data made available in this article, unless otherwise stated in a credit line to the data.

                History
                : 27 December 2019
                : 6 October 2020
                Funding
                Funded by: Sichuan International Cooperation Projects
                Award ID: 2017HH0071
                Award Recipient :
                Funded by: Modern Agro-industry Technology Research System
                Award ID: CARS-34
                Award Recipient :
                Funded by: Sichuan Province Breeding Research grant
                Award ID: 2016NYZ0039
                Award Recipient :
                Funded by: FundRef http://dx.doi.org/10.13039/501100012164, National High-tech Research and Development Program;
                Award ID: No. 2012AA101801-02
                Award Recipient :
                Categories
                Research
                Custom metadata
                © The Author(s) 2020

                Biotechnology
                panicum virgatum l.,whole genome duplication,drought response,microrna,transcriptome,wgcna

                Comments

                Comment on this article