Novel breeding approach for Japanese flounder using atmosphere and room temperature plasma mutagenesis tool
Abstract Background Artificial induction of mutagenesis is effective for genetic resource innovation and breeding. However, the traditional mutation methods for fish breeding are not convenient or safe for daily use. Hence, development of a simple, safe and effective mutagenesis method with a high m...
| Main Authors: | , , , , , , , , , |
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| Format: | Article |
| Language: | English |
| Published: |
BMC
2019-04-01
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| Series: | BMC Genomics |
| Subjects: | |
| Online Access: | http://link.springer.com/article/10.1186/s12864-019-5681-6 |
| _version_ | 1819038965710192640 |
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| author | Hou Ji-Lun Zhang Xiao-Yan Wang Gui-Xing Sun Zhao-Hui Du Wei Zhao Ya-Xian Si Fei Wang Li-Yan Xing Xin-Hui Wang Yu-Fen |
| author_facet | Hou Ji-Lun Zhang Xiao-Yan Wang Gui-Xing Sun Zhao-Hui Du Wei Zhao Ya-Xian Si Fei Wang Li-Yan Xing Xin-Hui Wang Yu-Fen |
| author_sort | Hou Ji-Lun |
| collection | DOAJ |
| description | Abstract Background Artificial induction of mutagenesis is effective for genetic resource innovation and breeding. However, the traditional mutation methods for fish breeding are not convenient or safe for daily use. Hence, development of a simple, safe and effective mutagenesis method with a high mutation rate and applicability to multiple fish species, is needed. Results We reported the first successful mutagenesis in a marine aquaculture fish species, Japanese flounder, Paralichthys olivaceus, using a novel atmosphere and room temperature plasma (ARTP) mutagenesis tool. ARTP treatment time was optimized for the fertilized eggs and sperm, respectively. Eggs fertilized for 60 min were treated by ARTP with a radio-frequency power input of 120 W, and the ARTP treatment time was 25 min. Under an ARTP radio-frequency power input of 200 W, the optimal treatment time for sperm diluted with Ringer’s solution by 1:40 v/v was 10 min. The ARTP-treated group presented differences in morphological traits such as body height, total length among individuals at day 90 after hatching. Whole-genome sequencing was used to reveal the mutation features of ARTP-treated individuals collected at day 120 after hatching. In total, 69.25Gb clean data were obtained from three controls and eight randomly selected ARTP-treated individuals, revealing 240,722 to 322,978 SNPs and 82,149 to 86,798 InDels located in 17,394~18,457 and 12,907~13,333 genes, respectively. The average mutation rate reached 0.064% at the genome level. Gene ontology clustering indicated that genes associated with cell components, binding function, catalytic activity, cellular process, metabolic process and biological regulation processes had higher mutation rates. Conclusions ARTP mutagenesis is a useful method for breeding of fish species to accelerate the selection of economically important traits that would benefit the aquaculture industry, given the variety of mutations detected. |
| first_indexed | 2024-12-21T08:45:42Z |
| format | Article |
| id | doaj.art-ce75141cc0f7413da844af83fcdd2da2 |
| institution | Directory Open Access Journal |
| issn | 1471-2164 |
| language | English |
| last_indexed | 2024-12-21T08:45:42Z |
| publishDate | 2019-04-01 |
| publisher | BMC |
| record_format | Article |
| series | BMC Genomics |
| spelling | doaj.art-ce75141cc0f7413da844af83fcdd2da22022-12-21T19:09:50ZengBMCBMC Genomics1471-21642019-04-0120111610.1186/s12864-019-5681-6Novel breeding approach for Japanese flounder using atmosphere and room temperature plasma mutagenesis toolHou Ji-Lun0Zhang Xiao-Yan1Wang Gui-Xing2Sun Zhao-Hui3Du Wei4Zhao Ya-Xian5Si Fei6Wang Li-Yan7Xing Xin-Hui8Wang Yu-Fen9Key Laboratory of Aquatic Genomics, Ministry of AgricultureBeidaihe Central Experiment Station, Chinese Academy of Fishery SciencesBeidaihe Central Experiment Station, Chinese Academy of Fishery SciencesBeidaihe Central Experiment Station, Chinese Academy of Fishery SciencesBeidaihe Central Experiment Station, Chinese Academy of Fishery SciencesBeidaihe Central Experiment Station, Chinese Academy of Fishery SciencesBeidaihe Central Experiment Station, Chinese Academy of Fishery SciencesTmaxTree Biotechnology CompanyKey Laboratory for Industrial Biocatalysis, Ministry of Education, Department of Chemical Engineering, Tsinghua UniversityBeidaihe Central Experiment Station, Chinese Academy of Fishery SciencesAbstract Background Artificial induction of mutagenesis is effective for genetic resource innovation and breeding. However, the traditional mutation methods for fish breeding are not convenient or safe for daily use. Hence, development of a simple, safe and effective mutagenesis method with a high mutation rate and applicability to multiple fish species, is needed. Results We reported the first successful mutagenesis in a marine aquaculture fish species, Japanese flounder, Paralichthys olivaceus, using a novel atmosphere and room temperature plasma (ARTP) mutagenesis tool. ARTP treatment time was optimized for the fertilized eggs and sperm, respectively. Eggs fertilized for 60 min were treated by ARTP with a radio-frequency power input of 120 W, and the ARTP treatment time was 25 min. Under an ARTP radio-frequency power input of 200 W, the optimal treatment time for sperm diluted with Ringer’s solution by 1:40 v/v was 10 min. The ARTP-treated group presented differences in morphological traits such as body height, total length among individuals at day 90 after hatching. Whole-genome sequencing was used to reveal the mutation features of ARTP-treated individuals collected at day 120 after hatching. In total, 69.25Gb clean data were obtained from three controls and eight randomly selected ARTP-treated individuals, revealing 240,722 to 322,978 SNPs and 82,149 to 86,798 InDels located in 17,394~18,457 and 12,907~13,333 genes, respectively. The average mutation rate reached 0.064% at the genome level. Gene ontology clustering indicated that genes associated with cell components, binding function, catalytic activity, cellular process, metabolic process and biological regulation processes had higher mutation rates. Conclusions ARTP mutagenesis is a useful method for breeding of fish species to accelerate the selection of economically important traits that would benefit the aquaculture industry, given the variety of mutations detected.http://link.springer.com/article/10.1186/s12864-019-5681-6ARTP mutagenesisJapanese flounderParalichthys olivaceusGenomeBreeding |
| spellingShingle | Hou Ji-Lun Zhang Xiao-Yan Wang Gui-Xing Sun Zhao-Hui Du Wei Zhao Ya-Xian Si Fei Wang Li-Yan Xing Xin-Hui Wang Yu-Fen Novel breeding approach for Japanese flounder using atmosphere and room temperature plasma mutagenesis tool BMC Genomics ARTP mutagenesis Japanese flounder Paralichthys olivaceus Genome Breeding |
| title | Novel breeding approach for Japanese flounder using atmosphere and room temperature plasma mutagenesis tool |
| title_full | Novel breeding approach for Japanese flounder using atmosphere and room temperature plasma mutagenesis tool |
| title_fullStr | Novel breeding approach for Japanese flounder using atmosphere and room temperature plasma mutagenesis tool |
| title_full_unstemmed | Novel breeding approach for Japanese flounder using atmosphere and room temperature plasma mutagenesis tool |
| title_short | Novel breeding approach for Japanese flounder using atmosphere and room temperature plasma mutagenesis tool |
| title_sort | novel breeding approach for japanese flounder using atmosphere and room temperature plasma mutagenesis tool |
| topic | ARTP mutagenesis Japanese flounder Paralichthys olivaceus Genome Breeding |
| url | http://link.springer.com/article/10.1186/s12864-019-5681-6 |
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