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Komori T, Sun Y, Kashihara M, Uekawa N, Kato N, Usami S, Ishikawa N, Hiei Y, Kobayashi K, Kum R, Bortiri E, White K, Oeller P, Takemori N, Bate NJ, Komari T. High-throughput phenotypic screening of random genomic fragments in transgenic rice identified novel drought tolerance genes. TAG. THEORETICAL AND APPLIED GENETICS. THEORETISCHE UND ANGEWANDTE GENETIK 2020; 133:1291-1301. [PMID: 31980835 DOI: 10.1007/s00122-020-03548-6] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 12/11/2019] [Accepted: 01/14/2020] [Indexed: 06/10/2023]
Abstract
Novel drought tolerance genes were identified by screening thousands of random genomic fragments from grass species in transgenic rice. Identification of agronomically important genes is a critical step for crop breeding through biotechnology. Multiple approaches have been employed to identify new gene targets, including comprehensive screening platforms for gene discovery such as the over-expression of libraries of cDNA clones. In this study, random genomic fragments from plants were introduced into rice and screened for drought tolerance in a high-throughput manner with the aim of finding novel genetic elements not exclusively limited to coding sequences. To illustrate the power of this approach, genomic libraries were constructed from four grass species, and screening a total of 50,825 transgenic rice lines for drought tolerance resulted in the identification of 12 reproducibly efficacious fragments. Of the twelve, two were from the mitochondrial genome of signal grass and ten were from the nuclear genome of buffalo grass. Subsequent sequencing and analyses revealed that the ten fragments from buffalo grass carried a similar genetic element with no significant homology to any previously characterized gene. The deduced protein sequence was rich in acidic amino acid residues in the C-terminal half, and two of the glutamic acid residues in the C-terminal half were shown to play an important role in drought tolerance. The results demonstrate that an open-ended screening approach using random genomic fragments could discover trait genes distinct from gene discovery based on known pathways or biased toward coding sequence over-expression.
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Affiliation(s)
- Toshiyuki Komori
- Plant Innovation Center, Japan Tobacco Inc., 700 Higashibara, Iwata, Shizuoka, 438-0802, Japan.
| | - Yuejin Sun
- Syngenta Crop Protection LLC, 9 Davis Drive, Research Triangle Park, NC, 27709, USA
| | - Masakazu Kashihara
- Plant Innovation Center, Japan Tobacco Inc., 700 Higashibara, Iwata, Shizuoka, 438-0802, Japan
| | - Natsuko Uekawa
- Plant Innovation Center, Japan Tobacco Inc., 700 Higashibara, Iwata, Shizuoka, 438-0802, Japan
| | - Norio Kato
- Plant Innovation Center, Japan Tobacco Inc., 700 Higashibara, Iwata, Shizuoka, 438-0802, Japan
| | - Satoru Usami
- Plant Innovation Center, Japan Tobacco Inc., 700 Higashibara, Iwata, Shizuoka, 438-0802, Japan
| | - Noriko Ishikawa
- Plant Innovation Center, Japan Tobacco Inc., 700 Higashibara, Iwata, Shizuoka, 438-0802, Japan
| | - Yukoh Hiei
- Plant Innovation Center, Japan Tobacco Inc., 700 Higashibara, Iwata, Shizuoka, 438-0802, Japan
| | - Kei Kobayashi
- Plant Innovation Center, Japan Tobacco Inc., 700 Higashibara, Iwata, Shizuoka, 438-0802, Japan
| | - Rise Kum
- Plant Innovation Center, Japan Tobacco Inc., 700 Higashibara, Iwata, Shizuoka, 438-0802, Japan
| | - Esteban Bortiri
- Syngenta Crop Protection LLC, 9 Davis Drive, Research Triangle Park, NC, 27709, USA
| | - Kimberly White
- Syngenta Crop Protection LLC, 9 Davis Drive, Research Triangle Park, NC, 27709, USA
| | - Paul Oeller
- Syngenta Crop Protection LLC, 9 Davis Drive, Research Triangle Park, NC, 27709, USA
| | - Naoki Takemori
- Plant Innovation Center, Japan Tobacco Inc., 700 Higashibara, Iwata, Shizuoka, 438-0802, Japan
| | - Nicholas J Bate
- Syngenta Crop Protection LLC, 9 Davis Drive, Research Triangle Park, NC, 27709, USA
- Pairwise Plants, 110 TW Alexander Drive, Research Triangle Park, NC, 27709, USA
| | - Toshihiko Komari
- Plant Innovation Center, Japan Tobacco Inc., 700 Higashibara, Iwata, Shizuoka, 438-0802, Japan
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Sahoo DK, Dey N, Maiti IB. pSiM24 is a novel versatile gene expression vector for transient assays as well as stable expression of foreign genes in plants. PLoS One 2014; 9:e98988. [PMID: 24897541 PMCID: PMC4045853 DOI: 10.1371/journal.pone.0098988] [Citation(s) in RCA: 11] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/06/2014] [Accepted: 05/08/2014] [Indexed: 01/03/2023] Open
Abstract
We have constructed a small and highly efficient binary Ti vector pSiM24 for plant transformation with maximum efficacy. In the pSiM24 vector, the size of the backbone of the early binary vector pKYLXM24 (GenBank Accession No. HM036220; a derivative of pKYLX71) was reduced from 12.8 kb to 7.1 kb. The binary vector pSiM24 is composed of the following genetic elements: left and right T-DNA borders, a modified full-length transcript promoter (M24) of Mirabilis mosaic virus with duplicated enhancer domains, three multiple cloning sites, a 3'rbcsE9 terminator, replication functions for Escherichia coli (ColE1) and Agrobacterium tumefaciens (pRK2-OriV) and the replicase trfA gene, selectable marker genes for kanamycin resistance (nptII) and ampicillin resistance (bla). The pSiM24 plasmid offers a wide selection of cloning sites, high copy numbers in E. coli and a high cloning capacity for easily manipulating different genetic elements. It has been fully tested in transferring transgenes such as green fluorescent protein (GFP) and β-glucuronidase (GUS) both transiently (agro-infiltration, protoplast electroporation and biolistic) and stably in plant systems (Arabidopsis and tobacco) using both agrobacterium-mediated transformation and biolistic procedures. Not only reporter genes, several other introduced genes were also effectively expressed using pSiM24 expression vector. Hence, the pSiM24 vector would be useful for various plant biotechnological applications. In addition, the pSiM24 plasmid can act as a platform for other applications, such as gene expression studies and different promoter expressional analyses.
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Affiliation(s)
- Dipak Kumar Sahoo
- KTRDC, College of Agriculture, Food and Environment, University of Kentucky, Lexington, Kentucky, United States of America
| | - Nrisingha Dey
- Department of Gene Function and Regulation, Institute of Life Sciences, Bhubaneswar, Odisha, India
| | - Indu Bhushan Maiti
- KTRDC, College of Agriculture, Food and Environment, University of Kentucky, Lexington, Kentucky, United States of America
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McCann J, Stabb EV, Millikan DS, Ruby EG. Population dynamics of Vibrio fischeri during infection of Euprymna scolopes. Appl Environ Microbiol 2004; 69:5928-34. [PMID: 14532046 PMCID: PMC201191 DOI: 10.1128/aem.69.10.5928-5934.2003] [Citation(s) in RCA: 96] [Impact Index Per Article: 4.6] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/20/2022] Open
Abstract
The luminous bacterium Vibrio fischeri colonizes a specialized light-emitting organ within its squid host, Euprymna scolopes. Newly hatched juvenile squid must acquire their symbiont from ambient seawater, where the bacteria are present at low concentrations. To understand the population dynamics of V. fischeri during colonization more fully, we used mini-Tn7 transposons to mark bacteria with antibiotic resistance so that the growth of their progeny could be monitored. When grown in culture, there was no detectable metabolic burden on V. fischeri cells carrying the transposon, which inserts in single copy in a specific intergenic region of the V. fischeri genome. Strains marked with mini-Tn7 also appeared to be equivalent to the wild type in their ability to infect and multiply within the host during coinoculation experiments. Studies of the early stages of colonization suggested that only a few bacteria became associated with symbiotic tissue when animals were exposed for a discrete period (3 h) to an inoculum of V. fischeri cells equivalent to natural population levels; nevertheless, all these hosts became infected. When three differentially marked strains of V. fischeri were coincubated with juvenile squid, the number of strains recovered from an individual symbiotic organ was directly dependent on the size of the inoculum. Further, these results indicated that, when exposed to low numbers of V. fischeri, the host may become colonized by only one or a few bacterial cells, suggesting that symbiotic infection is highly efficient.
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Affiliation(s)
- Jessica McCann
- Pacific Biomedical Research Center, University of Hawaii, Honolulu, Hawaii 96813, USA
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