Actinobacterial enzymes—An approach for engineering the rhizosphere microorganisms as plant growth promotors

Nagarajan, S.; Sangeetha, M.; Asokan, Neethu; Balagurunathan, Ramasamy; Hemalatha, N.

doi:10.1016/b978-0-323-89973-4.00025-9

Cited by 4 publications

(3 citation statements)

References 114 publications

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“…The ascomycetes are cosmopolitan in distribution and have great importance to humans for their ability to produce alcoholic beverages, bread and medicinally important compounds such as organic acids, enzymes, antibiotics, etc. 21 Similar findings have been reported by Bora et al (2016) 6 and Sha et al (2017) 14 while studying the starter cultures of the traditional beverages xaj-pitha , thiat and marcha . Narzary et al (2021) 15 have, however, found Mucoromycota as the largest fungal community in the starter culture emao.…”

Section: Discussionsupporting

confidence: 81%

Unveiling the microbial communities and metabolic pathways of Keem, a traditional starter culture, through whole-genome sequencing

Rana,

Chandola,

Sanwal

et al. 2024

Sci Rep

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Traditional alcoholic beverages have played a significant role in the cultural, social, and culinary fabric of societies worldwide for centuries. Studying the microbial community structure and their metabolic potential in such beverages is necessary to define product quality, safety, and consistency, as well as to explore associated biotechnological applications. In the present investigation, Illumina-based (MiSeq system) whole-genome shotgun sequencing was utilized to characterize the microbial diversity and conduct predictive gene function analysis of keem, a starter culture employed by the Jaunsari tribal community in India for producing various traditional alcoholic beverages. A total of 8,665,213 sequences, with an average base length of 151 bps, were analyzed using MG-RAST. The analysis revealed the dominance of bacteria (95.81%), followed by eukaryotes (4.11%), archaea (0.05%), and viruses (0.03%). At the phylum level, Actinobacteria (81.18%) was the most abundant, followed by Firmicutes (10.56%), Proteobacteria (4.00%), and Ascomycota (3.02%). The most predominant genera were Saccharopolyspora (36.31%), followed by Brevibacterium (15.49%), Streptomyces (9.52%), Staphylococcus (8.75%), Bacillus (4.59%), and Brachybacterium (3.42%). At the species level, the bacterial, fungal, and viral populations of the keem sample could be categorized into 3347, 57, and 106 species, respectively. Various functional attributes to the sequenced data were assigned using Cluster of Orthologous Groups (COG), Non-supervised Orthologous Groups (NOG), subsystem, and KEGG Orthology (KO) annotations. The most prevalent metabolic pathways included carbohydrate, lipid, and amino acid metabolism, as well as the biosynthesis of glycans, secondary metabolites, and xenobiotic biodegradation. Given the rich microbial diversity and its associated metabolic potential, investigating the transition of keem from a traditional starter culture to an industrial one presents a compelling avenue for future research.

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Section: Discussionsupporting

confidence: 81%

Unveiling the microbial communities and metabolic pathways of Keem, a traditional starter culture, through whole-genome sequencing

Rana,

Chandola,

Sanwal

et al. 2024

Sci Rep

View full text Add to dashboard Cite

show abstract

“…The dominance of actinobacteria in keem may be due to the use of local medicinal herbs providing a suitable environment for the growth of this group. Bacteria belonging to this group are well known for their ability to produce secondary metabolites such as vitamins, enzymes and antibiotics that exhibit a variety of biological activities 25 . Among fungi, Ascomycota was recorded as the most abundant phyla in our nding.…”

Section: Discussionmentioning

confidence: 99%

Microbial community structure and functional gene analysis of Keem (a starter culture) native to Jaunsari tribe of Uttarakhand, India

Rana

Sanwal²,

Arya

et al. 2022

Preprint

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The present work describes the microbial community and gene function in the microbiome associated with Keem, a starter culture used by Jaunsari tribal community of India, for making various traditional alcoholic beverages. For this, Illumina based (MiSeq system) whole metagenome shotgun sequencing approach was followed after extraction of genomic DNA from the starter culture. Initially 22,350,940 sequences with an average base length of 151 bps were obtained comprising a total read of 3,374,991,940 bp. The genomic DNA of human and plant origin was separated during quality control (QC) check and not considered for subsequent downstream analysis. Post QC a total number of 8,665,213 sequences with 1,156,651,659 bp were analysed using MG-RAST which revealed the dominance of bacteria in the microbial community of Keem (95.81% sequences) followed by eukaryota (4.11%), archaea (0.05%) and virus (0.03%). At phylum level, Actinobacteria (81.18%) was the most abundant followed by Firmicutes (10.56%), Proteobacteria (4.00%) and Ascomycota (3.02%). The most predominant genus was Saccharopolyspora (36.31%) followed by Brevibacterium (15.49%), Streptomyces (9.52%), Staphylococcus (875%), Bacillus (4.59%) and Brachybacterium (3.42%). At species level bacterial, fungal and virus population of Keem sample could be categorized into 3347, 57 and 106 species, respectively. Various functional attributes to the sequenced data were assigned using Cluster of Orthologous Groups (COG), Non-supervised Orthologous Groups (NOG), subsystem and KEGG Orthology (KO) annotations.

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“…This narrow region is highly complex and is considered one of the most dynamic interfaces on Earth ( Bano et al, 2021 ). As an important component of the rhizosphere, microorganisms form the structure of rhizosphere microbial population and greatly influence the interaction between plant and soil environment ( Siddharthan et al, 2022 ). Recent studies suggested that multiple soil ecological processes critical to plant growth were driven and maintained by microbes, and thus engineering improvement of soil microbes can largely increase plant productivity ( Shi et al, 2020a ; Fan et al, 2021 ).…”

Section: Introductionmentioning

confidence: 99%

Seasonal patterns of rhizosphere microorganisms suggest carbohydrate-degrading and nitrogen-fixing microbes contribute to the attribute of full-year shooting in woody bamboo Cephalostachyum pingbianense

Xia

Yang

2022

Front. Microbiol.

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Compared with the ordinary single-season shooting among woody bamboos in Poaceae, the attribute of full-year shooting in Cephalostachyum pingbianense represents a unique shooting type or mechanism. Nevertheless, except for the overall physiological mechanism, the effect of ecological factors, especially soil microorganisms, on this full-year shooting characteristic remains unclear. In this study, 16S rRNA and ITS rRNA genes were sequenced using the Illumina platform. Our aims were to detect the seasonal changes in rhizospheric microbial communities of C. pingbianense and to discover the correlations of soil microbes with soil properties and bamboo shoot productivity. The results showed that seasonal change had no significant effect on bacterial alpha diversity, but significantly affected bacterial and fungal community structures as well as fungal richness. Among all soil properties examined, soil temperature, soil moisture and organic matter were the predominant factors affecting bacterial community diversity and structure. Soil temperature and soil moisture also significantly influenced fungal community structure, while available phosphorus had the greatest effect on fungal diversity. In each season, bacterial genera Acidothermus, Roseiarcus, and Bradyrhizobium, along with fungal genera Saitozyma, Mortierella, Trichoderma, etc., were dominant in bacterial and fungal communities, respectively. Bacterial community functions in four seasons were dominated by chemoheterotrophy, cellulolysis, and nitrogen fixation. Saprotrophic fungi occupied a high proportion in soil samples of all seasons. In addition, correlation analysis revealed that the bamboo shoot productivity was positively correlated with multiple microbial taxa involved in carbon and nitrogen cycles. It is proposed that highly abundant microbes involved in carbohydrate degradation and nitrogen fixation in the rhizosphere soil may contribute to the attribute of producing bamboo shoots all year round in C. pingbianense. This study is among the few cases revealing the connection between bamboo shooting characteristics and soil microorganisms, and provides new physiological and ecological insights into the forest management of woody bamboos.

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Actinobacterial enzymes—An approach for engineering the rhizosphere microorganisms as plant growth promotors

Cited by 4 publications

References 114 publications

Unveiling the microbial communities and metabolic pathways of Keem, a traditional starter culture, through whole-genome sequencing

Unveiling the microbial communities and metabolic pathways of Keem, a traditional starter culture, through whole-genome sequencing

Microbial community structure and functional gene analysis of Keem (a starter culture) native to Jaunsari tribe of Uttarakhand, India

Seasonal patterns of rhizosphere microorganisms suggest carbohydrate-degrading and nitrogen-fixing microbes contribute to the attribute of full-year shooting in woody bamboo Cephalostachyum pingbianense

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