Multi-omics Analyses Provide Insight into the Biosynthesis Pathways of Fucoxanthin in Isochrysis galbana
Isochrysis galbana is considered an ideal bait for functional foods and nutraceuticals of humans because of its high fucoxanthin (Fx) content. However, multi-omics analysis of the regulatory networks for Fx biosynthesis in I. galbana has not been reported. In this study, we report a high-quality gen...
| Main Authors: | , , , , , , , , , , , , , , |
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| Format: | Article |
| Language: | English |
| Published: |
Elsevier
2022-12-01
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| Series: | Genomics, Proteomics & Bioinformatics |
| Subjects: | |
| Online Access: | http://www.sciencedirect.com/science/article/pii/S1672022922000948 |
| _version_ | 1797328114868551680 |
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| author | Duo Chen Xue Yuan Xuehai Zheng Jingping Fang Gang Lin Rongmao Li Jiannan Chen Wenjin He Zhen Huang Wenfang Fan Limin Liang Chentao Lin Jinmao Zhu Youqiang Chen Ting Xue |
| author_facet | Duo Chen Xue Yuan Xuehai Zheng Jingping Fang Gang Lin Rongmao Li Jiannan Chen Wenjin He Zhen Huang Wenfang Fan Limin Liang Chentao Lin Jinmao Zhu Youqiang Chen Ting Xue |
| author_sort | Duo Chen |
| collection | DOAJ |
| description | Isochrysis galbana is considered an ideal bait for functional foods and nutraceuticals of humans because of its high fucoxanthin (Fx) content. However, multi-omics analysis of the regulatory networks for Fx biosynthesis in I. galbana has not been reported. In this study, we report a high-quality genome assembly of I. galbana LG007, which has a genome size of 92.73 Mb, with a contig N50 of 6.99 Mb and 14,900 protein-coding genes. Phylogenetic analysis confirmed the monophyly of Haptophyta, with I. galbana sister to Emiliania huxleyi and Chrysochromulina tobinii. Evolutionary analysis revealed an estimated divergence time between I. galbana and E. huxleyi of ∼ 133 million years ago. Gene family analysis indicated that lipid metabolism-related genes exhibited significant expansion, including IgPLMT, IgOAR1, and IgDEGS1. Metabolome analysis showed that the content of carotenoids in I. galbana cultured under green light for 7 days was higher than that under white light, and β-carotene was the main carotenoid, accounting for 79.09% of the total carotenoids. Comprehensive multi-omics analysis revealed that the content of β-carotene, antheraxanthin, zeaxanthin, and Fx was increased by green light induction, which was significantly correlated with the expression of IgMYB98, IgZDS, IgPDS, IgLHCX2, IgZEP, IgLCYb, and IgNSY. These findings contribute to the understanding of Fx biosynthesis and its regulation, providing a valuable reference for food and pharmaceutical applications. |
| first_indexed | 2024-03-08T06:46:19Z |
| format | Article |
| id | doaj.art-8d6219d804a040588b875f89a1525233 |
| institution | Directory Open Access Journal |
| issn | 1672-0229 |
| language | English |
| last_indexed | 2024-03-08T06:46:19Z |
| publishDate | 2022-12-01 |
| publisher | Elsevier |
| record_format | Article |
| series | Genomics, Proteomics & Bioinformatics |
| spelling | doaj.art-8d6219d804a040588b875f89a15252332024-02-03T07:54:21ZengElsevierGenomics, Proteomics & Bioinformatics1672-02292022-12-0120611381153Multi-omics Analyses Provide Insight into the Biosynthesis Pathways of Fucoxanthin in Isochrysis galbanaDuo Chen0Xue Yuan1Xuehai Zheng2Jingping Fang3Gang Lin4Rongmao Li5Jiannan Chen6Wenjin He7Zhen Huang8Wenfang Fan9Limin Liang10Chentao Lin11Jinmao Zhu12Youqiang Chen13Ting Xue14The Public Service Platform for Industrialization Development Technology of Marine Biological Medicine and Products of the State Oceanic Administration, Center of Engineering Technology Research for Microalga Germplasm Improvement of Fujian, Fujian Key Laboratory of Special Marine Bioresource Sustainable Utilization, Fujian Key Laboratory of Developmental and Neural Biology, Southern Institute of Oceanography, College of Life Sciences, Fujian Normal University, Fuzhou 350117, ChinaThe Public Service Platform for Industrialization Development Technology of Marine Biological Medicine and Products of the State Oceanic Administration, Center of Engineering Technology Research for Microalga Germplasm Improvement of Fujian, Fujian Key Laboratory of Special Marine Bioresource Sustainable Utilization, Fujian Key Laboratory of Developmental and Neural Biology, Southern Institute of Oceanography, College of Life Sciences, Fujian Normal University, Fuzhou 350117, ChinaThe Public Service Platform for Industrialization Development Technology of Marine Biological Medicine and Products of the State Oceanic Administration, Center of Engineering Technology Research for Microalga Germplasm Improvement of Fujian, Fujian Key Laboratory of Special Marine Bioresource Sustainable Utilization, Fujian Key Laboratory of Developmental and Neural Biology, Southern Institute of Oceanography, College of Life Sciences, Fujian Normal University, Fuzhou 350117, ChinaThe Public Service Platform for Industrialization Development Technology of Marine Biological Medicine and Products of the State Oceanic Administration, Center of Engineering Technology Research for Microalga Germplasm Improvement of Fujian, Fujian Key Laboratory of Special Marine Bioresource Sustainable Utilization, Fujian Key Laboratory of Developmental and Neural Biology, Southern Institute of Oceanography, College of Life Sciences, Fujian Normal University, Fuzhou 350117, ChinaThe Public Service Platform for Industrialization Development Technology of Marine Biological Medicine and Products of the State Oceanic Administration, Center of Engineering Technology Research for Microalga Germplasm Improvement of Fujian, Fujian Key Laboratory of Special Marine Bioresource Sustainable Utilization, Fujian Key Laboratory of Developmental and Neural Biology, Southern Institute of Oceanography, College of Life Sciences, Fujian Normal University, Fuzhou 350117, ChinaFujian Fishery Resources Monitoring Center, Fuzhou 350003, ChinaThe Public Service Platform for Industrialization Development Technology of Marine Biological Medicine and Products of the State Oceanic Administration, Center of Engineering Technology Research for Microalga Germplasm Improvement of Fujian, Fujian Key Laboratory of Special Marine Bioresource Sustainable Utilization, Fujian Key Laboratory of Developmental and Neural Biology, Southern Institute of Oceanography, College of Life Sciences, Fujian Normal University, Fuzhou 350117, ChinaThe Public Service Platform for Industrialization Development Technology of Marine Biological Medicine and Products of the State Oceanic Administration, Center of Engineering Technology Research for Microalga Germplasm Improvement of Fujian, Fujian Key Laboratory of Special Marine Bioresource Sustainable Utilization, Fujian Key Laboratory of Developmental and Neural Biology, Southern Institute of Oceanography, College of Life Sciences, Fujian Normal University, Fuzhou 350117, ChinaThe Public Service Platform for Industrialization Development Technology of Marine Biological Medicine and Products of the State Oceanic Administration, Center of Engineering Technology Research for Microalga Germplasm Improvement of Fujian, Fujian Key Laboratory of Special Marine Bioresource Sustainable Utilization, Fujian Key Laboratory of Developmental and Neural Biology, Southern Institute of Oceanography, College of Life Sciences, Fujian Normal University, Fuzhou 350117, ChinaThe Public Service Platform for Industrialization Development Technology of Marine Biological Medicine and Products of the State Oceanic Administration, Center of Engineering Technology Research for Microalga Germplasm Improvement of Fujian, Fujian Key Laboratory of Special Marine Bioresource Sustainable Utilization, Fujian Key Laboratory of Developmental and Neural Biology, Southern Institute of Oceanography, College of Life Sciences, Fujian Normal University, Fuzhou 350117, ChinaThe Public Service Platform for Industrialization Development Technology of Marine Biological Medicine and Products of the State Oceanic Administration, Center of Engineering Technology Research for Microalga Germplasm Improvement of Fujian, Fujian Key Laboratory of Special Marine Bioresource Sustainable Utilization, Fujian Key Laboratory of Developmental and Neural Biology, Southern Institute of Oceanography, College of Life Sciences, Fujian Normal University, Fuzhou 350117, ChinaThe Public Service Platform for Industrialization Development Technology of Marine Biological Medicine and Products of the State Oceanic Administration, Center of Engineering Technology Research for Microalga Germplasm Improvement of Fujian, Fujian Key Laboratory of Special Marine Bioresource Sustainable Utilization, Fujian Key Laboratory of Developmental and Neural Biology, Southern Institute of Oceanography, College of Life Sciences, Fujian Normal University, Fuzhou 350117, ChinaThe Public Service Platform for Industrialization Development Technology of Marine Biological Medicine and Products of the State Oceanic Administration, Center of Engineering Technology Research for Microalga Germplasm Improvement of Fujian, Fujian Key Laboratory of Special Marine Bioresource Sustainable Utilization, Fujian Key Laboratory of Developmental and Neural Biology, Southern Institute of Oceanography, College of Life Sciences, Fujian Normal University, Fuzhou 350117, ChinaThe Public Service Platform for Industrialization Development Technology of Marine Biological Medicine and Products of the State Oceanic Administration, Center of Engineering Technology Research for Microalga Germplasm Improvement of Fujian, Fujian Key Laboratory of Special Marine Bioresource Sustainable Utilization, Fujian Key Laboratory of Developmental and Neural Biology, Southern Institute of Oceanography, College of Life Sciences, Fujian Normal University, Fuzhou 350117, ChinaThe Public Service Platform for Industrialization Development Technology of Marine Biological Medicine and Products of the State Oceanic Administration, Center of Engineering Technology Research for Microalga Germplasm Improvement of Fujian, Fujian Key Laboratory of Special Marine Bioresource Sustainable Utilization, Fujian Key Laboratory of Developmental and Neural Biology, Southern Institute of Oceanography, College of Life Sciences, Fujian Normal University, Fuzhou 350117, China; Corresponding author.Isochrysis galbana is considered an ideal bait for functional foods and nutraceuticals of humans because of its high fucoxanthin (Fx) content. However, multi-omics analysis of the regulatory networks for Fx biosynthesis in I. galbana has not been reported. In this study, we report a high-quality genome assembly of I. galbana LG007, which has a genome size of 92.73 Mb, with a contig N50 of 6.99 Mb and 14,900 protein-coding genes. Phylogenetic analysis confirmed the monophyly of Haptophyta, with I. galbana sister to Emiliania huxleyi and Chrysochromulina tobinii. Evolutionary analysis revealed an estimated divergence time between I. galbana and E. huxleyi of ∼ 133 million years ago. Gene family analysis indicated that lipid metabolism-related genes exhibited significant expansion, including IgPLMT, IgOAR1, and IgDEGS1. Metabolome analysis showed that the content of carotenoids in I. galbana cultured under green light for 7 days was higher than that under white light, and β-carotene was the main carotenoid, accounting for 79.09% of the total carotenoids. Comprehensive multi-omics analysis revealed that the content of β-carotene, antheraxanthin, zeaxanthin, and Fx was increased by green light induction, which was significantly correlated with the expression of IgMYB98, IgZDS, IgPDS, IgLHCX2, IgZEP, IgLCYb, and IgNSY. These findings contribute to the understanding of Fx biosynthesis and its regulation, providing a valuable reference for food and pharmaceutical applications.http://www.sciencedirect.com/science/article/pii/S1672022922000948Isochrysis galbanaFucoxanthinWhole-genome duplicationMetabolomeTranscriptome |
| spellingShingle | Duo Chen Xue Yuan Xuehai Zheng Jingping Fang Gang Lin Rongmao Li Jiannan Chen Wenjin He Zhen Huang Wenfang Fan Limin Liang Chentao Lin Jinmao Zhu Youqiang Chen Ting Xue Multi-omics Analyses Provide Insight into the Biosynthesis Pathways of Fucoxanthin in Isochrysis galbana Genomics, Proteomics & Bioinformatics Isochrysis galbana Fucoxanthin Whole-genome duplication Metabolome Transcriptome |
| title | Multi-omics Analyses Provide Insight into the Biosynthesis Pathways of Fucoxanthin in Isochrysis galbana |
| title_full | Multi-omics Analyses Provide Insight into the Biosynthesis Pathways of Fucoxanthin in Isochrysis galbana |
| title_fullStr | Multi-omics Analyses Provide Insight into the Biosynthesis Pathways of Fucoxanthin in Isochrysis galbana |
| title_full_unstemmed | Multi-omics Analyses Provide Insight into the Biosynthesis Pathways of Fucoxanthin in Isochrysis galbana |
| title_short | Multi-omics Analyses Provide Insight into the Biosynthesis Pathways of Fucoxanthin in Isochrysis galbana |
| title_sort | multi omics analyses provide insight into the biosynthesis pathways of fucoxanthin in isochrysis galbana |
| topic | Isochrysis galbana Fucoxanthin Whole-genome duplication Metabolome Transcriptome |
| url | http://www.sciencedirect.com/science/article/pii/S1672022922000948 |
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