干旱区生态环境知识资源中心(Arid): Metabarcoding of the phytotelmata of Pseudalcantarea grandis (Bromeliaceae) from an arid zone

Arid

DOI	10.7717/peerj.12706
	Metabarcoding of the phytotelmata of Pseudalcantarea grandis (Bromeliaceae) from an arid zone
	Alan Herrera-Garcia, Jose; Martinez, Mahinda; Zamora-Tavares, Pilar; Vargas-Ponce, Ofelia; Hernandez-Sandoval, Luis; Alejandro Rodriguez-Zaragoza, Fabian
通讯作者	Martinez, M (corresponding author)，Univ Autonoma Queretaro, Queretaro, Mexico. ; Martinez, M (corresponding author)，Lab Nacl Identificac & Caracterizac Vegetal, Queretaro, Mexico.
来源期刊	PEERJ
ISSN	2167-8359
出版年	2022
卷号	10
英文摘要	Background: Pseudalcantarea grandis (Schltdl.) Pinzon & Barfuss is a tank bromeliad that grows on cliffs in the southernmost portion of the Chihuahuan desert. Phytotelmata are water bodies formed by plants that function as micro-ecosystems where bacteria, algae, protists, insects, fungi, and some vertebrates can develop. We hypothesized that the bacterial diversity contained in the phytotelma formed in a bromeliad from an arid zone would differ in sites with and without surrounding vegetation. Our study aimed to characterize the bacterial composition and putative metabolic functions in P. grandis phytotelmata collected in vegetated and non-vegetated sites. Methods: Water from 10 individuals was sampled. Five individuals had abundant surrounding vegetation, and five had little or no vegetation. We extracted DNA and amplified seven hypervariable regions of the 16S gene (V2, V4, V8, V3-6, 7-9). Metabarcoding sequencing was performed on the Ion Torrent PGM platform. Taxonomic identity was assigned by the binning reads and coverage between hit and query from the reference database of at least 90%. Putative metabolic functions of the bacterial families were assigned mainly using the FAPROTAX database. The dominance patterns in each site were visualized with rank/abundance curves using the number of Operational Taxonomic Units (OTUs) per family. A percentage similarity analysis (SIMPER) was used to estimate dissimilarity between the sites. Relationships among bacterial families (identified by the dominance analysis and SIMPER), sites, and their respective putative functions were analyzed with shade plots. Results: A total of 1.5 million useful bacterial sequences were obtained. Sequences were clustered into OTUs, and taxonomic assignment was conducted using BLAST in the Greengenes databases. Bacterial diversity was 23 phyla, 52 classes, 98 orders, 218 families, and 297 genera. Proteobacteria (37%), Actinobacteria (19%), and Firmicutes (15%) comprised the highest percentage (71%). There was a 68.3% similarity between the two sites at family level, with 149 families shared. Aerobic chemoheterotrophy and fermentation were the main metabolic functions in both sites, followed by ureolysis, nitrate reduction, aromatic compound degradation, and nitrogen fixation. The dominant bacteria shared most of the metabolic functions between sites. Some functions were recorded for one site only and were related to families with the lowest OTUs richness. Bacterial diversity in the P. grandis tanks included dominant phyla and families present at low percentage that could be considered part of a rare biosphere. A rare biosphere can form genetic reservoirs, the local abundance of which depends on external abiotic and biotic factors, while their interactions could favor micro-ecosystem resilience and resistance.
英文关键词	Bromeliads High endemicity Water sample 16S Proteobacteria Actinobacteria Firmicutes Taxonomic variation Functional redundancy Resilience
类型	Article
语种	英语
开放获取类型	Green Published, gold
收录类别	SCI-E
WOS记录号	WOS:000749551400004
WOS关键词	DIVERSITY
WOS类目	Multidisciplinary Sciences
WOS研究方向	Science & Technology - Other Topics
资源类型	期刊论文
条目标识符	http://119.78.100.177/qdio/handle/2XILL650/376502
作者单位	[Alan Herrera-Garcia, Jose; Martinez, Mahinda; Hernandez-Sandoval, Luis] Univ Autonoma Queretaro, Queretaro, Mexico; [Martinez, Mahinda; Hernandez-Sandoval, Luis] Lab Nacl Identificac & Caracterizac Vegetal, Queretaro, Mexico; [Zamora-Tavares, Pilar; Vargas-Ponce, Ofelia] Univ Guadalajara, Ctr Univ Ciencias Biol & Agr, Inst Bot, Dept Bot & Zool, Guadalajara, Jalisco, Mexico; [Zamora-Tavares, Pilar; Vargas-Ponce, Ofelia] Lab Nacl Identificac & Caracterizac Vegetal, Guadalajara, Jalisco, Mexico; [Alejandro Rodriguez-Zaragoza, Fabian] Univ Guadalajara, Ctr Univ Ciencias Biol & Agr, Dept Ecol, Lab Ecol Mol Microbiol & Taxon LEMITAX, Guadalajara, Jalisco, Mexico
推荐引用方式 GB/T 7714	Alan Herrera-Garcia, Jose,Martinez, Mahinda,Zamora-Tavares, Pilar,et al. Metabarcoding of the phytotelmata of Pseudalcantarea grandis (Bromeliaceae) from an arid zone[J],2022,10.
APA	Alan Herrera-Garcia, Jose,Martinez, Mahinda,Zamora-Tavares, Pilar,Vargas-Ponce, Ofelia,Hernandez-Sandoval, Luis,&Alejandro Rodriguez-Zaragoza, Fabian.(2022).Metabarcoding of the phytotelmata of Pseudalcantarea grandis (Bromeliaceae) from an arid zone.PEERJ,10.
MLA	Alan Herrera-Garcia, Jose,et al."Metabarcoding of the phytotelmata of Pseudalcantarea grandis (Bromeliaceae) from an arid zone".PEERJ 10(2022).