Dynamics of Gut Microbiome in Giant Panda Cubs Reveal Transitional Microbes and Pathways in Early Life
Adult giant pandas (Ailuropoda melanoleuca) express transitional characteristics in that they consume bamboos, despite their carnivore-like digestive tracts. Their genome contains no cellulolytic enzymes; therefore, understanding the development of the giant panda gut microbiome, especially in early...
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| Format: | Article |
| Language: | English |
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Frontiers Media S.A.
2018-12-01
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| Series: | Frontiers in Microbiology |
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| Online Access: | https://www.frontiersin.org/article/10.3389/fmicb.2018.03138/full |
| _version_ | 1818452518707920896 |
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| author | Min Guo Jianwei Chen Qiongfang Li Ying Fu Guangyi Fan Guangyi Fan Guangyi Fan Jinmin Ma Ling Peng Liyun Zeng Jing Chen Yayu Wang Simon Ming-Yuen Lee |
| author_facet | Min Guo Jianwei Chen Qiongfang Li Ying Fu Guangyi Fan Guangyi Fan Guangyi Fan Jinmin Ma Ling Peng Liyun Zeng Jing Chen Yayu Wang Simon Ming-Yuen Lee |
| author_sort | Min Guo |
| collection | DOAJ |
| description | Adult giant pandas (Ailuropoda melanoleuca) express transitional characteristics in that they consume bamboos, despite their carnivore-like digestive tracts. Their genome contains no cellulolytic enzymes; therefore, understanding the development of the giant panda gut microbiome, especially in early life, is important for decoding the rules underlying gut microbial formation, inheritance and dietary transitions. With deep metagenomic sequencing, we investigated the gut microbiomes of two newborn giant panda brothers and their parents living in Macao, China, from 2016 to 2017. Both giant panda cubs exhibited progressive increases in gut microbial richness during growth, particularly from the 6th month after birth. Enterobacteriaceae dominated the gut microbial compositions in both adult giant pandas and cubs. A total of 583 co-abundance genes (CAGs) and about 79 metagenomic species (MGS) from bacteria or viruses displayed significant changes with age. Seven genera (Shewanella, Oblitimonas, Helicobacter, Haemophilus, Aeromonas, Listeria, and Fusobacterium) showed great importance with respect to gut microbial structural determination in the nursing stage of giant panda cubs. Furthermore, 10 orthologous gene functions and 44 pathways showed significant changes with age. Of the significant pathways, 16 from Escherichia, Klebsiella, Propionibacterium, Lactobacillus, and Lactococcus displayed marked differences between parents and their cubs at birth, while 29 pathways from Escherichia, Campylobacter and Lactobacillus exhibited significant increase in cubs from 6 to 9 months of age. In addition, oxidoreductases, transferases, and hydrolases dominated the significantly changed gut microbial enzymes during the growth of giant panda cubs, while few of them were involved in cellulose degradation. The findings indicated diet-stimulated gut microbiome transitions and the important role of Enterobacteriaceae in the guts of giant panda in early life. |
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| format | Article |
| id | doaj.art-6a837a849b334a158fcbbf74d212b97f |
| institution | Directory Open Access Journal |
| issn | 1664-302X |
| language | English |
| last_indexed | 2024-12-14T21:24:22Z |
| publishDate | 2018-12-01 |
| publisher | Frontiers Media S.A. |
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| series | Frontiers in Microbiology |
| spelling | doaj.art-6a837a849b334a158fcbbf74d212b97f2022-12-21T22:46:51ZengFrontiers Media S.A.Frontiers in Microbiology1664-302X2018-12-01910.3389/fmicb.2018.03138423787Dynamics of Gut Microbiome in Giant Panda Cubs Reveal Transitional Microbes and Pathways in Early LifeMin Guo0Jianwei Chen1Qiongfang Li2Ying Fu3Guangyi Fan4Guangyi Fan5Guangyi Fan6Jinmin Ma7Ling Peng8Liyun Zeng9Jing Chen10Yayu Wang11Simon Ming-Yuen Lee12State Key Laboratory of Quality Research in Chinese Medicine, Institute of Chinese Medical Sciences, University of Macau, Macau, ChinaBGI-Qingdao, BGI-Shenzhen, Qingdao, ChinaBGI-Shenzhen, Shenzhen, ChinaFaculty of Science and Technology, University of Macau, Macau, ChinaState Key Laboratory of Quality Research in Chinese Medicine, Institute of Chinese Medical Sciences, University of Macau, Macau, ChinaBGI-Qingdao, BGI-Shenzhen, Qingdao, ChinaBGI-Shenzhen, Shenzhen, ChinaBGI-Shenzhen, Shenzhen, ChinaBGI-Shenzhen, Shenzhen, ChinaRealbio Genomics Institute, Shanghai, ChinaRealbio Genomics Institute, Shanghai, ChinaBGI-Shenzhen, Shenzhen, ChinaState Key Laboratory of Quality Research in Chinese Medicine, Institute of Chinese Medical Sciences, University of Macau, Macau, ChinaAdult giant pandas (Ailuropoda melanoleuca) express transitional characteristics in that they consume bamboos, despite their carnivore-like digestive tracts. Their genome contains no cellulolytic enzymes; therefore, understanding the development of the giant panda gut microbiome, especially in early life, is important for decoding the rules underlying gut microbial formation, inheritance and dietary transitions. With deep metagenomic sequencing, we investigated the gut microbiomes of two newborn giant panda brothers and their parents living in Macao, China, from 2016 to 2017. Both giant panda cubs exhibited progressive increases in gut microbial richness during growth, particularly from the 6th month after birth. Enterobacteriaceae dominated the gut microbial compositions in both adult giant pandas and cubs. A total of 583 co-abundance genes (CAGs) and about 79 metagenomic species (MGS) from bacteria or viruses displayed significant changes with age. Seven genera (Shewanella, Oblitimonas, Helicobacter, Haemophilus, Aeromonas, Listeria, and Fusobacterium) showed great importance with respect to gut microbial structural determination in the nursing stage of giant panda cubs. Furthermore, 10 orthologous gene functions and 44 pathways showed significant changes with age. Of the significant pathways, 16 from Escherichia, Klebsiella, Propionibacterium, Lactobacillus, and Lactococcus displayed marked differences between parents and their cubs at birth, while 29 pathways from Escherichia, Campylobacter and Lactobacillus exhibited significant increase in cubs from 6 to 9 months of age. In addition, oxidoreductases, transferases, and hydrolases dominated the significantly changed gut microbial enzymes during the growth of giant panda cubs, while few of them were involved in cellulose degradation. The findings indicated diet-stimulated gut microbiome transitions and the important role of Enterobacteriaceae in the guts of giant panda in early life.https://www.frontiersin.org/article/10.3389/fmicb.2018.03138/fullgiant panda cubsgut microbiotaco-abundance genesimportant microbesgut microbial gene functions and pathways |
| spellingShingle | Min Guo Jianwei Chen Qiongfang Li Ying Fu Guangyi Fan Guangyi Fan Guangyi Fan Jinmin Ma Ling Peng Liyun Zeng Jing Chen Yayu Wang Simon Ming-Yuen Lee Dynamics of Gut Microbiome in Giant Panda Cubs Reveal Transitional Microbes and Pathways in Early Life Frontiers in Microbiology giant panda cubs gut microbiota co-abundance genes important microbes gut microbial gene functions and pathways |
| title | Dynamics of Gut Microbiome in Giant Panda Cubs Reveal Transitional Microbes and Pathways in Early Life |
| title_full | Dynamics of Gut Microbiome in Giant Panda Cubs Reveal Transitional Microbes and Pathways in Early Life |
| title_fullStr | Dynamics of Gut Microbiome in Giant Panda Cubs Reveal Transitional Microbes and Pathways in Early Life |
| title_full_unstemmed | Dynamics of Gut Microbiome in Giant Panda Cubs Reveal Transitional Microbes and Pathways in Early Life |
| title_short | Dynamics of Gut Microbiome in Giant Panda Cubs Reveal Transitional Microbes and Pathways in Early Life |
| title_sort | dynamics of gut microbiome in giant panda cubs reveal transitional microbes and pathways in early life |
| topic | giant panda cubs gut microbiota co-abundance genes important microbes gut microbial gene functions and pathways |
| url | https://www.frontiersin.org/article/10.3389/fmicb.2018.03138/full |
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