Enhanced Rice Seedling Growth by Clostridium and Pseudomonas

Doni, Febri; Anizan, I.; Radziah, C. M. Z. Che; Ahmed, Wan Natasya Wan; Ashari, Abidah; Suryadi, Eka; Yusoff, Wan Mohtar Wan

doi:10.3923/biotech.2014.186.189

Cited by 12 publications

(3 citation statements)

References 15 publications

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“…Koribacter (nitrogen metabolism) (Júnior et al, 2019), Ca . Solibacter (nitrogen metabolism), Clostridium (nitrogen-fixing) (Doni et al, 2014), Pseudonocardia (siderophore production), Geoalkalibacter (syntrophic organic matter degradation) (Neveling et al, 2017), Saccharopolyspora (phosphate-mineralizing) (Franco-Correa and Chavarro-Anzola, 2016), and Acidobacterium (indole-3-acetic acid production) (Kielak et al, 2016b). Their prevalence could be because of the symbiotic association with the plants.…”

Section: Discussionmentioning

confidence: 99%

16S rRNA Gene Amplicon Based Metagenomic Signatures of Rhizobiome Community in Rice Field During Various Growth Stages

et al. 2019

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Rice is a major staple food across the globe. Its growth and productivity is highly dependent on the rhizobiome where crosstalk takes place between plant and the microbial community. Such interactions lead to selective enrichment of plant beneficial microbes which ultimately defines the crop health and productivity. In this study, rhizobiome modulation is documented throughout the development of rice plant. Based on 16S rRNA gene affiliation at genus level, abundance, and diversity of plant growth promoting bacteria increased during the growth stages. The observed α diversity and rhizobiome complexity increased significantly (p < 0.05) during plantation. PCoA indicates that different geographical locations shared similar rhizobiome diversity but exerted differential enrichment (p < 0.001). Diversity of enriched genera represented a sigmoid curve and subsequently declined after harvest. A major proportion of dominant enriched genera (p < 0.05, abundance > 0.1%), based on 16S rRNA gene, were plant growth promoting bacteria that produces siderophore, indole-3-acetic acid, aminocyclopropane-1-carboxylic acid, and antimicrobials. Hydrogenotrophic methanogens dominated throughout cultivation. Type I methanotrophs (n = 12) had higher diversity than type II methanotrophs (n = 6). However, the later had significantly higher abundance (p = 0.003). Strong enrichment pattern was also observed in type I methanotrophs being enriched during water logged stages. Ammonia oxidizing Archaea were several folds more abundant than ammonia oxidizing bacteria. K-strategists Nitrosospira and Nitrospira dominated ammonia and nitrite oxidizing bacteria, respectively. The study clarifies the modulation of rhizobiome according to the rice developmental stages, thereby opening up the possibilities of bio-fertilizer treatment based on each cultivation stages.

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Section: Discussionmentioning

confidence: 99%

16S rRNA Gene Amplicon Based Metagenomic Signatures of Rhizobiome Community in Rice Field During Various Growth Stages

et al. 2019

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“…Some species of Clostridium might have beneficial effects on plant growth. Clostridium produces GAs, phytohormones that stimulate plant growth, mainly stem elongation and seed germination (Doni et al 2014). Clostridium also produces acetate, butyrate, and hydrogen, which other bacteria or plants use as substrates or energy sources (Du et al 2020).…”

Section: Discussionmentioning

confidence: 99%

Diversity of root bacterial community associated with seven orchid species from Mount Merbabu National Park, Central Java, Indonesia

PANGASTUTI,

PITOYO,

SUSILOWATI

et al. 2023

Biodiversitas

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Abstract. Pangastuti A, Pitoyo A, Susilowati A, Meisari R, Yuliana I, Aulia K, Puspitasari LP, Rusiani, Prasojo H. 2023. Diversity of root bacterial community associated with seven orchid species from Mount Merbabu National Park, Central Java, Indonesia. Biodiversitas 24: 5676-5684. Indonesia has a high diversity of wild orchids. One of the orchid habitats that has not been widely explored is Mount Merbabu National Park (TNGMb), Central Java, Indonesia. The dependence of orchids on specific microorganisms for survival and growth, especially during early development, has not been widely studied. Endophytes, such as bacteria, can help the host plant grow, tolerate stress, resist disease, acquire nutrients, or form symbiotic relationships. However, bacterial endophytes associated with orchids have not been extensively explored. This research examined the diversity of bacteria associated with orchid roots in Mount Merbabu National Park using a culture-independent method. Seven orchid species were sampled for root bacterial community analysis, that identified as Spathoglottis plicata, Dendrobium sagittatum, Malaxis kobi, Apendicula alba, Pholidota carnea, Dendrobium tenellum, and Bulbophyllum compressa. Bacterial diversity in all orchid roots was high, with several dominant bacterial species. Proteobacteria, Firmicutes, Bacteriodota, and Actinobacteriota were the four most abundant phyla, with Proteobacteria having the highest abundance (37 to 90%) in all samples. The top ten bacteria genera were Pseudomonas, Serratia, Rhodanobacter, Acinetobacter, Escherichia, Bifidobacterium, Clostridium, Parabulkholderia, Faecalibacterium, and Muribaculaceae family that could not be identified at the genus level. Overall, 61, 42, 838, 98, 78, 973, and 1383 OTUs were unique to S. plicata, D. sagittatum, M. kobi, A. alba, P. carnea, D. tenellum, and B. compressa, respectively, whereas all seven species shared 335 OTUs. Our research suggested that environmental factors and the host plant's genetics affect the plant microbiome's composition and diversity. These elements might be essential for ecosystem function and conservation.

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“…Clostridium species (phylum Firmicutes) are gram-positive endospore-forming anaerobic bacteria that inhabit diverse environments including animal and human gut, sewage, lake sediments, and paddy soil. Previously, several growth-enhancing Clostridium species isolated from the root and rhizosphere of rice seedlings were classified as plant growth-promoting rhizobacteria (PGPR; Febri et al, 2014;Zeiller et al, 2015); however, some caused disease in potato and kiwifruit (Shabuer et al, 2015;Spigaglia et al, 2020). In agriculture, anaerobic soil disinfestation (ASD), a preplanting soil treatment method that creates anaerobic soil conditions, was conventionally utilized to suppress the growth of soil-borne pathogens such as Ralstonia solanacearum, Fusarium oxysporum, and Verticillium spp.…”

Section: Introductionmentioning

confidence: 99%