World Journal of Environmental Biosciences
World Journal of Environmental Biosciences
2023 Volume 12 Issue 1

Endophytic Bacteria Associated with Rice: Role in Biotic and Abiotic Stress Protection and Plant Growth Promotions

 

Purnamsree Gogoi1, Madhu Kamle1*, Pradeep Kumar2

 

1Applied Microbiology Laboratory, Department of Forestry, North Eastern Regional Institute of Science and Technology, Nirjuli (Itanagar) 791109, India.

2Department of Botany, University of Lucknow, Lucknow-226007, India.


Abstract

Rice (Oryzae sativa) is an edible starchy grain for a significant population of the World, and it supplies more than 50% of calories consumed by the entire human population. Regarding rice production, India holds the second position next to China. The threat to rice yield is encouraged by various biotic and abiotic factors. Increased rice production needed to satisfy global demand results in excessive use of chemical fertilizers and pesticides and, in the end, toxicity to human and environmental health. Endophytic microbes have potentials to combat various biotic and abiotic stress causes to the rice production. Endophytic microorganisms also utilized as biocontrol due to its properties such as antibacterial, antifungal and plant growth promotions which make theseas one of the safe and alternative approaches to chemical fertilizers in sustainable agricultural practices. This review, briefly summarised the endophytic bacteria from rice plants with their biocontrol potential, plant growth-promoting attributes and their prospects with special reference to north east India.

Keywords: Endophytic bacteria, Biocontrol agents, Phytopathogens, Plant growth promoting activity, Sustainable agriculture


INTRODUCTION 

 

Rice is an important cereal food crop of global significance that belongs to the family Graminae and genus Oryza, including twenty wild species and two cultivated species, namely, Oryza sativa (cultivated throughout the World) and Oryza glaberrima (cultivated mainly in Africa) (Pareja et al., 2011). The monocotyledonous plant is mainly grown in humid tropical and subtropical climates. Rice (Oryza sativa) is a staple food grain for more than one-half of the World's population, and it provides more than 20% of the daily calorie intake (Ray et al., 2013; Habib et al., 2017; Gull & Kausar, 2018). Rice is commonly grown in plain areas and near rivers, but it is difficult to discuss the specific condition for rice cultivation. It can be grown in almost all kinds of environments depending on the nature of the cultivars. Variations in rice yield occur according to latitude. The regions located at the latitude of 40° S and 45°N are recognized for extensive rice cultivation. The highest rice yield is also seen between 30° N and 45° N of equators. Rice can also be grown below sea level, i.e., in Kerala, and at 1979 m altitudes, i.e., in Jammu and Kashmir. The deep-water rice varieties are favourably grown in flood-prone areas during the rainy season (Chang et al., 1987). Almost thousands of varieties of O. sativa are found to grow in more than 100 countries. They can be grouped into three wide ecological varieties: (a) the long-grained indica variety grown in tropical and subtropical Asia, (b) the short or medium-grained rice variety cultivated in temperate regions, and (c) the medium-grained javonica variety grown in the Philippines and the mountainous area of Madagascar and Indonesia (Muthayya et al., 2014). Asian countries, including India, China, Japan, Philippines, Thailand, Indonesia, Sri Lanka, etc., account for 90% of the total World's total rice production, while other non-Asian rice-producing countries include Brazil, Egypt, Nigeria, Madagascar, the United States which account for 5% of the rice produced globally. China and India account for more than 50% of rice production (Muthayya et al., 2012). India is the second largest producer (42.9 million hectares) and 27.1% of the total Rice growing area next to China (Singh et al., 2012). In India, the lower and middle Ganga plains, the east and west Coastal plains, the Brahmaputra valley, and parts of the Peninsular plateau are known as major rice-producing areas (Mahajan et al., 2017). Northeast India has diverse geographical regions with varied climatic conditions for rice cultivation (Singh et al., 2006). India has five rice-growing regions: the northern region, the northeastern region, the eastern region, the southern region, and the western region. Assam, one of the eight states of northeast India located between 24°N and 28°18/ N latitudes and 89°4/ E and 96°0/ E longitudes, is considered an essential contributor of rice to the economy of India (Singh et al., 2003).

It is estimated that 800 million tons of rice production will be essential to meet global hunger by 2025. However, increased rice production results in higher costs and excessive use of chemical fertilizers and pesticides. Abiotic conditions like flood, drought, and salinity affect rice productivity (Jana et al., 2022). Furthermore, rice diseases can cause devastating economic loss by decreasing yield production and by disturbing the stable food supply chain (Kim et al., 2021). Diseases caused by pathogens become a significant threat to rice yield, which causes 20-100% yield losses (Shivappa et al., 2021). Almost 70% of the diseases in rice plants are caused by bacteria, fungi, and nematodes (Etesami, 2019). It is found that during heavy rainfall, the brown spot disease of rice becomes a bulging threat in areas such as the Himalayas, Malabar coast, West Bengal, and Assam (Chakrabarti, 2001). The disease was also known for contributing a significant factor to the “Great Bengal Famine, 1942” by decreasing 50- 90% yield losses and causing the death of two million people (Chakrabarti, 2001). In 1910, sheath blight of rice was reported in Japan first time and subsequently spread across temperate and tropical regions (Willocquet & Savary, 2011). Sheath rot disease occurs in all Rice cultivating areas, and now the disease has been recognized as a major threat to rice production (Bigirimana et al., 2015). The most common fungal diseases of rice include sheath blight, sheath rot, brown spot, etc. While in DWR, sheath blight (ShB), sheath rot (ShR), and stem borer (SB) are found (Islam et al., 2004). To control and suppress the total yield loss caused by biotic and abiotic factors, local farmers have used commercially available fungicides and other chemicals, severely affecting human and environmental health. Therefore, there is an urgent need to take action to minimize the negative effect of chemically synthesized fertilizers and fungicides and search for an alternative method that sustainably enhances agricultural practices. The application of beneficial microorganisms having biocontrol potential is considered a safe and an alternative approach to chemical fertilizers and fungicides (Widiantini et al., 2017; Etesami, 2019).

In 1898, Vogl reported the presence of endophytes for the first time, and several reports have studied endophytes isolated from tissues of different plant parts since 1940 (Mano & Morisaki, 2008). Endophytes are defined as microorganisms (fungi and bacteria) that live inside the plant host tissue without producing any symptoms or causing any harm to the host plant (Laskar et al., 2012). Many findings suggested that endophytic bacteria (both gram-positive and gram-negative) have also been extracted from different plants like soybean, wheat, corn, sorghum, cucumber, sugar beet, and Rice (Misaghi & Donndelinger, 1990; Stoltzfus et al., 1997; Zinniel et al., 2002; Chandrashekhara et al., 2007). Endophytes can enter the plant primarily through root tips and aerial portions of the plants, such as stems, flowers, and leaves, and systematically spread over the whole plant body (Kandel et al., 2017). Bacterial endophytes colonize plant tissue by creating beneficial relationships with host plant via the synthesis of phytohormones, production of enzymes, mobilization of nutrients, and nitrogen fixation (Hassan, 2017; Naseem et al., 2018; Hassan et al., 2020). Endophytes are also vital in the plant's physiological activities, such as enhancing resistance to diseases and stress and improving productivity and they also synthesize secondary metabolites of plant importance (Gouda et al., 2016). The biocontrol of plant pathogens using endophytic bacteria has been evaluated for rice plants and other plants (Mano & Morisaki, 2008). Commonly found endophytic bacteria like Pseudomonas, Azospirillum, and Bacillus are known to play a significant role in the growth of crop plants by synthesizing required metabolites (Chandrashekhara et al., 2007; Waqas et al., 2014). Endophytes can exert plant growth-promoting activities in various ways, such as by producing plant growth hormones like Indole Acetic Acid (IAA), through solubilization of phosphate, Production of siderophores, and providing vitamins and nitrogen to plants (Bandara et al., 2006). They can also accelerate plant growth and nitrogen-fixing capabilities of the host plant (Verma et al., 2001; Rahman & Saiga, 2005).

Biocontrol mechanisms of endophytic bacteria

The biological interactions provide several benefits to the involved species and have a positive impact on the integrity and sustainability of the agroecosystem (Brusamarello-Santos et al., 2017). The endophytic bacteria can directly act on plant growth enhancement by the production of growth regulators and other lytic enzymes, phosphorous solubilization, and acceleration of digestion which confer resistance to biotic factors. Endophytes can also indirectly transmit beneficial traits by producing bioactive compounds for controlling pathogens, cell wall degrading enzymes, and stimulating systematic resistance (Kandel et al., 2021). Figure 1 is drawn to explain the mechanisms of action of biocontrol agents and to understand the interaction between endophytes and host plants.

 

Screenshot_20220620-135035_Office

Figure 1.  Biocontrol mechanism of actions of endophytic bacteria

 

Detoxification of virulent factors

Detoxification and degradation of virulent pathogen factors is a unique mechanism of endophytic bacteria. The mechanism depends on the protein production that binds reversibly and irreversibly to the toxins produced by pathogens (Compant et al., 2005). For example, strains of B. azandar and R. solanacearum can hydrolyze fusaric acid produced by Fusarium species (Toyoda & Utsumi, 1991). In addition, it is reported that biocontrol agents such as Pseudomonas sp and Pantoea sp can detoxify the albicidin toxin produced by Xanthomonas sp (Zhang & Birch, 1996; Walsh et al., 2001).

 

Competition for iron and siderophore production

Iron is an essential element for the metabolic processes of almost all living organisms. That is why competition may arise in soil due to scarcity of available ions to the soil microbiota and plant (Mazhar et al., 2016). Thus, microorganisms have adapted several mechanisms. Low molecular weight compounds such as “siderophores” are released by endophytic microbes to absorb iron (Fe+3) (Miethke & Marahiel, 2007). Pedraza et al. (2007) reported that siderophore production could be considered a biocontrol mechanism that showed antagonism towards pathogenic fungi for iron elements. Tian et al. (2009) isolated some gram-negative bacteria like Bacillus, Pseudomonas, and Enterobacter genera which can secret siderophores under iron-limiting conditions.

 

Antibiosis

Antibiotics are low molecular weight heterogenous compounds that inhibit the metabolic and growth functions of pathogens and can enhance the plant defense system. Compant et al., 2005 reported that antibiotics and antibiotic-related compounds such as kanamycin, oligomycin A, xanthobaccin, and zwittermicin A are produced by Streptomyces, Bacillus, and Stenotrophomonas spp. Haas and Défago, 2005 found six antibiotic groups, including phloroglucinols, pyrrolnitrin, pyoluteorin, phenazines, cyclic lipopeptide, and hydrogen cyanide, can act as inhibitors of root diseases.

 

Production of growth regulators

The main growth hormones produced by endophytes are auxin (indole acetic acid- IAA), gibberellic acid (GA), cytokinin, ethylene, etc. IAA is responsible for cell elongation, differentiation, and lateral and adventitious root growth, whereas GA is for seed germination and delaying plant aging. Cytokinin controls cell division and ethylene production responses during environmental stress (Jana et al., 2022). Bacillus, Microbacterium, Micrococcus, and Pseudomonas, etc. are some well-known groups of rice-associated endophytic bacteria that lead synthesis of auxin and GA, seedling growth, and other PGP activity (Ji et al., 2014; Krishnamoorthy et al., 2020; Borah et al., 2021).

 

Biological nitrogen fixation

Biological nitrogen-fixing is an environment-friendly key process to fix about 60% of atmospheric nitrogen on the Earth. The nitrogen fixation mechanism is governed by the enzyme nitrogenase (encoded by nif genes), which converts atmospheric nitrogen into ammonia for plant uptake (Wang et al., 2013). Endophytic organisms having nitrogen fixation activity have a significant role in fixing atmospheric nitrogen in an available form for their host species (Puri et al., 2017). Several Rice endophytic bacteria have been reported to help increase nitrogen fixation among the host plant, such as Azoarcus sp, Burkholderia sp, Herbaspirillum seropedicae, and Gluconacetobacter diazotrophicus (Bhattacharjee et al., 2008; Zhou et al., 2020).

 

Induction of plant resistance

Certain bacteria can activate chemicals that fortify plant cell wall strengths and metabolic responses of the host plant, leading to an enhanced plant defense system against pathogenic substances and/ or abiotic stress factors (Compant et al., 2005). Bacillus is well known for induced systematic resistance (ISR) under abiotic stress conditions (Chakraborty et al., 2006). Viswanathan and Samiyappan (1999) found that P. fluorescence triggered ISR against the red rot disease of sugarcane caused by Colletotrichum falcatum.

 

Hyperparasite and predation

The bacterial endophytes can adopt hyperparasitism and/or predation by synthesizing lytic enzymes such as chitinase, glucanase, cellulose, etc., which can degrade the cell wall of fungal pathogens. The extracellular chitinase and laminariase produced by Pseudomonas stutzeri digest and lyse mycelia of F. solani (Lim et al., 1991). Β-1,3 glucanase enzyme synthesized by B. azandar can destroy the integrity of  R. solani, S. rolfsii, and Pythium ultimum (Fridlender et al., 1993).

 

Rice endophytes against phytopathogens

Endophytic microorganisms that live inside the plant parts have a significant role in plant growth and defense response. The application of endophytic organisms and their bioactive compound is considered an alternative strategy to control phytopathogens. Mukhopadhyay et al. (1996) isolated bacterial endophytes from the seedling of rice exhibiting antagonistic effects against fungal pathogens R. solani, P. myriotylum, G. graminis, H. annosum by secreting various antifungal compounds. Endophytic bacteria isolated from rice plants have potential control for rice seedling disease and plant growth promotion (Adhikari et al., 2001). Isolation of endophytic fungi and actinomycetes from rice cultivars showed an antagonistic effect against rice pathogens (Tian et al., 2004). Table 1 is presented to describe the application of rice endophytic bacteria against phytopathogens exclusively.

 

 

Table 1. Application of rice endophytic bacteria against phytopathogens

Rice variety

Isolated endophytic bacteria

Biocontrol potential against phytopathogens

References

Oryza sativa L.

var. Morelos and Apatzingan

(parts used- seeds)

Corynebacterium avescens and Bacillus pumilus

Inhibited the growth of Azospirillum brasilense in rice seedlings.

Bacilio-Jiménez et al., 2001

Oryza sativa L.

(parts used- stems)

Bacillus sp. CHM1

Antifungal activities against Fusarium oxysporum, Rhizoctonia solani, Colletotrichum gossypii, Gibberella zeae, Botrytis cinerea pers,  and Dothiorella grgaria.

Wang et al., 2009

Oryza sativa L.

(parts used- roots)

Bacillus sp.

Antibacterial activities against Xanthomonas oryzae and Burkholderia glumae cause bacterial blight and panicle blight disease of rice.

Chung et al., 2015

Oryza sativa L. cv. Katy and MH86

(parts used- seeds)

Bacillus amyloliquefaciens B.methylotrophicus and B. subtilis

Antagonistic activities against Xanthomonas oryzae, cause the bacterial leaf blight disease of rice.

El-shakh et al., 2015

Oryza sativa L.

(parts used- roots)

Rhizobium sp.,

Azospirillum sp.

Antagonistic activities against Rhizoctonia solani, Fusarium oxysporum, and Pythium sp.

Sev et al., 2016

Oryza sativa L.

(parts used- roots)

Bacillus

Suppression of the development of sheath blight disease and bacterial panicle blight disease of rice.

Shrestha et al. (2016)

Oryza sativa L. cv. Gohar

(parts used- seeds)

Stenotrophomonas maltophilia SEN1

Antifungal activity against Magnaporthe grisea, by secretion of fungistatic metabolites.

Etesami and Alikhani, 2016

Oryza sativa L. cv. Gohar

(parts used- roots)

Bacillus cereus

Showed inhibition of mycelial growth against Fusarium proliferum, F. verticillioides, F. fujikuroi, Magnaporthe azandar, and Magnaporthe grisea.

Etesami and Alikhani, 2017

Oryza sativa L

(parts used- rhizosphere)

Bacillus sp MBRL-576

Anti-microbial potential against fungal pathogens such as Curvularia oryzae, Rhizoctonia solani, and Fusarium oxysporum, by producing diffusing and volatile compounds and fungal cell wall degrading enzymes.

Tamreihao et al., 2018

Oryza sativa L.

var. indica cv. RD41  and

s, O. sativa L. var. indica cv. Pathumthani 1

(parts used- roots)

Bacillus subtilis, Bacillus kochii, Bacillus altitudinis

Antifungal activity against Alternaria, Bipolaris, Cercospora, Curvularia, Fusarium, and Sarocladium, which causes dirty panicle disease (DPD) OF RICE

Rangjaroen et al., 2019

Oryza sativa L.

(parts used- roots)

BacillusFictibacillus,

LysinibacillusPaenibacillus,

Cupriavidus,and Microbacterium

Resistance against fungal pathogens, including M. oryzae, R.solani, F. graminearum, F. moniliforme, by synthesizing different bioactive compounds

Khaskheli et al., 2020

Oryza sativa L.

Paenibacillus polymyxa

Shown promising activity against phytopathogens such as Fusarium oxysporum, P. aphanidermatum, P. myriotylum, P. infestans, C. acutatum, and S. rolfsii

Radhakrishnan et al., 2021

Oryza sativa L.

(Parts used- roots)

Burkholderia sp

The isolate inhibits infection of Magnaporthe oryzae, which causes rice blast disease by the production of small molecules of antifungal compounds.

Xue et al., 2022

 

 

Rice endophytic bacteria for plant growth promotion

Endophytic plant growth-promoting (PGP) bacteria utilize many direct and indirect mechanisms to enhance plant growth and productivity. Due to its environment-friendly nature, the application of endophytes has been considered an alternative biocontrol strategy in agricultural practices (Ali et al., 2017). The application of rice endophytic bacteria for plant growth-promoting activity and their potentiality as biocontrol approaches are discussed below (Table 2).

 

 

Table 2. Application of rice endophytic bacteria for plant growth promotion activity

Rice variety name

Parts used

Isolated endophytic bacteria

PGP activity

Reference

Oryza sativa L.

Roots, stems, and leaves

Methylobacterium sp, Curtobacterium sp

Showed osmotic resistance, nitrogen-fixing ability, and cellulase activity.

Elbeltagy et al., 2000

Oryza sativa L.

Roots

P. Pseudoalcaligenes,

B. pumilus

Showed better responses against the adverse effects of salinity.

Jha et al., 2011

Oryza sativa L. cv. KDML105

Roots, stems, and leaves

Streptomyces sp

PGP activity by siderophore production.

Rungin et al., 2012

Oryza sativa L.

Roots

Rhizobium sp.,

Azospirillum sp.

Exhibited plant growth enhancement by IAA production, phosphate solubilizing activity, and nitrogen fixation capacity

Sev et al., 2016

Oryza sativa L.

ssp. Indica

Seeds

Flavobacterium sp., Microbacterium sp., and Xanthomonas sp

Performed PGP activities such as hormone modulation, nitrogen fixation, siderophore production, and phosphate solubilization

Walitang et al., 2017

Oryza sativa L.

Leaf, stem, and root

Pseudomonas aeruginosa , Bacillus megaterium, Sphingobacterium siyangensis, Stenotrophomonas pavanii and Curtobacterium plantarum

PGP trait by Production of IAA and siderophore and secretion of phosphate solubilization and ACC deaminase. These isolates are promising bioinoculants for the detoxification of chlorpyrifos (cp) residues in rice plants and grains.

Feng et al., 2017

Oryza sativa L.

Leaf, stem, and root

Lysinibacillus sphaericus

The isolates showed Nitrogen-fixing activity

Shabanamol et al., 2018

Oryza sativa L.

Shoots and roots

Mycobacterium, Bacillus, Pseudacidovorax, Rhizobium, Sphingomonas, Flavobacterium, Pseudomonas

Isolates showed nitrogen fixation potential, IAA production ability, and tolerance towards etridiazole and metalaxyl application

Shen et al., 2019

Oryza sativa L.

Roots

Rhizobium sp.

PGP traits by Production of siderophore, ACC deaminase, and IAA. Also produced some secondary metabolites.

Zhao et al., 2020

Oryza sativa L.

Roots

Bacillus tequilensis and Bacillus aryabhattai

The isolates were found to be tolerant at high salt concentrations and could be used as a good potential for salinity mitigation practice for coastal rice cultivation

Shultana et al., 2020

Oryza sativa L.

Roots

Pseudomonas, Ralstonia, Burkholderia, Bradyrhizobium, Clostridium, Sideroxydans, Kineosporia, Bacillus

Endophytic bacteria from Cadmium-contaminated rice roots display high Cd resistance and may promote plant growth, suggesting their potential in reducing high metal stress on the plant

Chu et al., 2021

Oryza meridionalis

Roots, stems, and leaves

Bacteroides,Prevotella, Alistipes,Rhodanobacter, Brevundimonas, Lactobacillus, Haliangium, Faecalibacterium, Alloprevotella, Terriglobu

Isolates could be applied as a good potential to reduce phthalates (PAEs) accumulation in crops and to increase yield

Liu et al., 2020

 

 

Exploration of endophytic bacteria from rice varieties of north-east India

Thakuria et al., 2004 isolated different groups of bacteria (Azospirilla, Bacillus, and Pseudomonas) from rice cultivated in the acidic nature of the soil in Assam and evaluated them for phosphate solubilizing activity, IAA production level, nitrogenase activity, and antibiotic resistance profile. Laskar et al. (2012) isolated endophytes from rice plants in the Barak valley of Assam. The results revealed that the stems and leaves region of rice plants contain the maximum diversity of endophytes. Roy et al. (2021) investigated fungi that live inside the seeds of indigenous varieties of rice plants in Northeast India and determined IAA activity in vitro, and Fusarium sp showed the highest antifungal activity against the rice pathogen Magnaporthe grisea. The research concluded that seed-borne endophytes could be used as bioinoculants for crop improvement. Saikia and Bora (2021) explored actinomycetes and endophytes isolated from rice cultivation of the Jorhat and Lakhimpur districts of Assam and found effective management for rice bacterial blight. Borah et al. (2018) investigated the endophytic microbial diversity of wild and cultivated rice varieties and concluded that rice endophytes could be applied as efficient plant growth promoters and biofertilizers. Kumar et al. (2020) isolated and characterized endophytic bacteria from six rice varieties grown in central, eastern, and northeast India. The findings suggested that Bacillus subtilis isolate exhibiting antibacterial and antifungal activity in their study may be utilized for the development of bio formulations for controlling multiple biotic stress. Shepra et al. (2021) isolated and characterized rhizobacteria from a paddy field in Sikkim, India. The results indicated their plant growth-promoting attributes in rice plants and biocontrol potential against phytopathogen Colletotrichum gloeosporioides of large cardamom (Amomum subulatum). Borah et al. (2021) studied endophytic bacteria isolated from wild and cultivated rice varieties of Assam and their utility as growth-promoting factors to plants. The result indicated that rice endophytes have the potential as an effective bioinoculant.

CONCLUSION

The application of biocontrol agents satisfies the goal of a sustainable agricultural system. Understanding the mechanism of interaction between antagonist and pathogen is one of the critical key steps of sustainable agriculture as it provides correct hints for the selection of effective biocontrol agents. Unfortunately, it is estimated that only less than 10% of the overall global crop protection market is covered by biocontrol agents (McDougall, 2018). Therefore, there is an urgent need for more comprehensive biocontrol research. The foremost step in the development of effective commercial biological control-based products is the screening for appropriate candidates (Raymaekers et al., 2020). Since the current scenario is facing the urge for food to satisfy the hunger of the increasing human population, developing biocontrol agents with high productivity impact in rice crops is a tough challenge. One crucial point is that one particular endophyte might not offer all the beneficial characteristics to the host. Thus, depth research for searching and finding bacteria with potential growth-promoting characteristics, stress tolerance, and biocontrol features is essential.

Most of the experiments and studies mentioned in this paper have only been done at a laboratory scale. Therefore, further research should be carried out to provide more knowledge on the mechanisms of biological control agents. The research should be performed at a commercial scale to largely occupy the global market of crop protection. It is expected that in the future, the biological control-based product will be commercially available to farmers worldwide, and this will azand to achieve higher and better yields in farming practices.

Recent studies reveal that only limited rice varieties have rarely been analyzed for endophytic biology till today. Since each 300,000 plant species on the Earth harbors one or more endophytes (Borah et al., 2021); thus, there are more chances of discovering novel endophytic bacteria from indigenous rice varieties of different parts of the World.

There are many examples of endophytic organisms that can help their host plant to compete and overcome various biotic and abiotic stress. Thus, an innovative strategy for the development of biofertilizers and beneficial microbes may create a new era in future agriculture. Moreover, this could be an effective tool for the enhancement of crop yield in an environment-friendly manner.

ACKNOWLEDGMENTS: The authors are thankful to the higher authority of the respective departments and organizations.

CONFLICT OF INTEREST: None

FINANCIAL SUPPORT: None

ETHICS STATEMENT: None

 
References

Adhikari, T. B., Joseph, C. M., Yang, G., Phillips, D. A., & Nelson, L. M. (2001). Evaluation of bacteria isolated from Rice for plant growth promotion and biological control of seedling disease of Rice. Canadian Journal of Microbiology, 47(10), 916-924.

Ali, S., Charles, T. C., & Glick, B. R. (2017). Endophytic Phytohormones and Their Role in Plant Growth Promotion. In: Doty, S. (eds) Functional Importance of the Plant Microbiome. Springer, Cham. doi:10.1007/978-3-319-65897-1_6

Bacilio-Jiménez, M., Aguilar-Flores, S., del Valle, M. V., Pérez, A., Zepeda, A., & Zenteno, E. (2001). Endophytic bacteria in rice seeds inhibit early colonization of roots by Azospirillum brasilense. Soil Biology and Biochemistry33(2), 167-172.

Bandara, W. M. M. S., Seneviratne, G., & Kulasooriya, S. A. (2006). Interactions among endophytic bacteria and fungi: effects and potentials. Journal of Biosciences, 31(5), 645-650.

Bhattacharjee, R. B., Singh, A., & Mukhopadhyay, S. N. (2008). Use of nitrogen-fixing bacteria as biofertilizer for non-legumes: Prospects and challenges. Applied Microbiology and Biotechnology, 80, 199-209.

Bigirimana, V. D. P., Hua G. K., Nyamangyoku, O. I., & Höfte, M. (2015). Rice sheath rot: an emerging ubiquitous destructive disease complex. Frontiers in Plant Science, 6, 1066.

Borah, M., Das, S., Baruah, H., Boro, R. C., & Barooah, M. (2018). Diversity of culturable endophytic bacteria from wild and cultivated Rice showed potential plant growth-promoting activities. BioRxiv, 310797.

Borah, M., Das, S., Bora, S. S., Boro, R. C., & Barooah, M. (2021). Comparative assessment of multi-trait plant growth-promoting endophytes associated with cultivated and wild Oryza germplasm of Assam, India. Archives of Microbiology, 203(5), 2007-2028.

Brusamarello-Santos, L. C., Gilard, F., Brulé, L., Quilleré, I., Gourion, B., Ratet, P., Maltempi de Souza, E., Lea, P. J., & Hirel, B. (2017). Metabolic profiling of two maize (Zea mays L.) inbred lines inoculated with the nitrogen fixing plant-interacting bacteria Herbaspirillum seropedicae and Azospirillum brasilense. PloS one, 12(3), e0174576.

Chakrabarti, N. K. (2001). Epidemiology and disease management of brown spot of Rice in India. In: Major Fungal Diseases of Rice. Springer, 293-306.

Chakraborty, U., Chakraborty, B., & Basnet, M. (2006). Plant growth promotion and induction of resistance in Camellia sinensis by Bacillus megaterium. Journal of Basic Microbiology46(3), 186-195.

Chandrashekhara, S. N., Deepak, S. A., Amruthesh, K. N., Shetty, P. N., & Shetty, S. H. (2007). Endophytic bacteria from different plant origins enhance growth and induce downy mildew resistance in pearl millet. Asian Journal of Plant Pathology, 1(1), 1-11.

Chang, T. T. (1987). The impact of Rice on human civilization and population expansion. Interdisciplinary Science Reviews, 12(1), 63-69.

Chu, C., Fan, M., Song, C., Li, N., Zhang, C., Fu, S., Wang, W., & Yang, Z. (2021). Unveiling Endophytic Bacterial Community Structures of Different Rice Cultivars Grown in a Cadmium-Contaminated Paddy Field. Frontiers in Microbiology12, 756327. doi:10.3389/fmicb.2021.756327

Chung, E. J., Hossain, M. T., Khan, A., Kim, K. H., Jeon, C. O., & Chung, Y. R. (2015). Bacillus oryzicola sp. nov., an endophytic bacterium isolated from the roots of Rice with antimicrobial, plant growth promoting, and systemic resistance inducing activities in Rice. The Plant Pathology Journal31(2), 152.

Compant, S., Duffy, B., Nowak, J., Clément, C., & Barka, E. A. (2005). Use of plant growth-promoting bacteria for biocontrol of plant diseases: principles, mechanisms of action, and prospects. Applied and Environmental Microbiology, 71(9), 4951-4959. doi:10.1128/AEM.71.9.4951-4959.2005

Elbeltagy, A., Nishioka, K., Suzuki, H., Sato, T., Sato, Y., & Morisaki, H. (2000). Soil science and plant nutrition isolation and characterization of endophytic bacteria from wild and traditionally cultivated rice varieties. Soil Science and Plant Nutrition, 46 (3), 617-629.

El-shakh, A. S., Kakar, K. U., Wang, X., Almoneafy, A. A., Ojaghian, M. R., Li, B., Anjum, S. I., & Xie, G. L. (2015). Controlling bacterial leaf blight of Rice and enhancing the plant growth with endophytic and rhizobacterial Bacillus strains. Toxicological & Environmental Chemistry, 97(6), 766-785. doi:10.1080/02772248.2015.1066176

Etesami, H. (2019). Plant growth promotion and suppression of fungal pathogens in Rice (Oryza sativa L.) by plant growth-promoting bacteria. Field crop: sustainable management by PGPR, 351-383.

Etesami, H., & Alikhani, H. A. (2016). Suppression of the fungal pathogenMagnaporthe griseabyStenotrophomonas maltophilia, seed-borne rice (Oryza sativaL.) endophytic bacterium. Archives of Agronomy and Soil Science, 62(9), 1271–1284. doi:10.1080/03650340.2016.1139087

Etesami, H., & Alikhani, H. A. (2017). Evaluation of gram-positive rhizosphere and endophytic bacteria for biological control of fungal rice (Oryzia sativa L.) pathogens. European Journal of Plant Pathology147(1), 7-14.

Feng, F., Ge, J., Li, Y., He, S., Zhong, J., Liu, X., & Yu, X. (2017b). Enhanced degradation of chlorpyrifos in rice (Oryza sativa L.) by five strains of endophytic bacteria and their plant growth promotional ability. Chemosphere 184, 505-513.

Fridlender, M., Inbar, J., & Chet, I. (1993). Biological control of soilborne plant pathogens by a -1,3-glucanase-producing Pseudomonas azandar. Soil Biology and Biochemistry. 25(9), 1211-1221.

Gouda, S., Das, G., Sen, S. K., Shin, H. S., & Patra, J. K. (2016). Endophytes: A Treasure House of Bioactive Compounds of Medicinal Importance. Frontiers in Microbiology, 7, 1538.

Gull, M., & Kausar, A. (2018). Comparative analysis of various growth, ions uptake and other physiological performance of two rice (Oryza sativa L.) genotypes under altering saline conditions. Pharmacophore, 9(5), 73-81.

Haas, D., & Défago, G. (2005). Biological control of soil-borne pathogens by fluorescent pseudomonads. Nature reviews microbiology3(4), 307-319.

Habib, V., Mohammad, G., Zeinal–Abedin, B., & Zahra, M. (2017). Ochratoxin a detection in rice samples in azandaran province. Pharmacophore, 8(6), 10-21.

Hassan, A., Mohammed, M., Majumder, D., Thakuria, D., & Rangappa, K. (2020). Biocontrol potential, plant growth promoting activities of bacterial endophytes against major diseases of Rice in eastern Himalaya region of India. Sudanese Journal of Agricultural Sciences, 6(1), 1-27.

Hassan, S. E. D. (2017). Plant growth-promoting activities for bacterial and fungal endophytes isolated from a medicinal plant of Teucrium polium L. Journal of Advanced Research,  8(6), 687-695.

Islam, Z., Heong, K. L., Bell, M., Hazarika, L. K., Rajkhowa, D. J., Ali, S., Dutta, B. C., & Bhuyan, M. (2004). Current status of rice pests and their management in Assam, India-a discussion with extension agents. International Rice Research Notes, 29, 95-97.

Jana, S. K., Islam, M. M. & Mandal, S. (2022). Endophytic Microbiota of Rice and Their Collective Impact on Host Fitness. Current Microbiology, 79(2), 37.

Jha, Y., Subramanian, R. B., & Patel, S. (2011). A combination of endophytic and rhizospheric plant growth-promoting rhizobacteria in Oryza sativa shows a higher accumulation of osmoprotectant against saline stress. Acta Physiologiae Plantarum33(3), 797-802.

Ji, S. H., Gururani, M. A., & Chun, S. C. (2014). Isolation and characterization of plant growth promoting endophytic diazotrophic bacteria from Korean rice cultivars. Microbiological Research, 169(1), 83-98. doi:10.1016/j.micres.2013.06.003

Kandel, S. L., Joubert, P. M., & Doty, S. L. (2017). Bacterial Endophyte Colonization and Distribution within Plants. Microorganisms, 5(4), 77.

Khaskheli, M. A, Wu, L., Chen, G., Chen, L., Hussain, S., Song, D., Liu, S., & Feng, G. (2020). Isolation and characterization of root-associated bacterial endophytes and their biocontrol potential against major fungal phytopathogens of Rice (Oryza sativa L.). Pathogens, 9(3), 172.

Kim, J., Song, J. S., Jeong, M. H., Park, S. Y., & Kim, Y. (2021). Biocontrol of Rice Diseases by Microorganisms. Research in Plant Disease27(4), 129-136.

Krishnamoorthy, A., Agarwal, T., Kotamreddy, J., Bhattacharya, R., Mitra, A., Maiti, T. K., & Maiti, M. K. (2020). Impact of seed-transmitted endophytic bacteria on intra- and inter-cultivar plant growth promotion modulated by certain sets of metabolites in rice crop. Microbiological Research, 241, 126582. doi:10.1016/j.micres.2020.126582

Kumar, V., Jain, L., Jain, S. K., Chaturvedi, S., & Kaushal, P. (2020). Bacterial endophytes of Rice (Oryza sativa L.) and their potential for plant growth promotion and antagonistic activities. South African Journal of Botany, 134: 50-63.

Laskar, F., Nevita, T., & Sharma, G. (2012). Isolation and identification of endophytes from different cultivars of Rice (Oryza sativa L.) under wetland and upland conditions in South Assam. Journal of Pure and Applied Microbiology, 6, 357-362.

Lim, H. S., Kim, Y. S., & Kim, S. D. (1991). Pseudomonas stutzeri YPL-1 genetic transformation and antifungal mechanism against Fusarium solani, an agent of plant root rot. Applied and Environmental Microbiology, 57, 510-516.

Mahajan, G., Kumar, V., & Chauhan, B. S. (2017). Rice production in India. Rice production worldwide, 53-91.

Mano, H., & Morisaki, H. (2008). Endophytic bacteria in the rice plant. Microbes and Environments, 23(2), 109-117.

Mazhar, R., Ilyas, N., Raja, N. I., Saeed, M., Hussain, M., Seerat, W., Qureshi, H., & Shabir, S. (2016). Plant growth promoting Rhizobacteria: Biocontrol potential for pathogens. Pure and Applied Biology (PAB)5(4), 1288-1295. doi:10.19045/bspab.2016.50154

McDougall, P. (2018). Evolution of the crop protection industry since 1960. Phillips McDougall, Midlothian, UK.

Miethke, M., & Marahiel, M. (2007). Siderophore-based iron acquisition and pathogen control. Microbiology and Molecular Biology Reviews, 71(Suppl 3), 413-451.

Misaghi, I. J., & Donndelinger, C. R. (1990). Endophytic bacteria in symptom-free cotton plants. Phytopathology, 80(9), 808-811.

Mukhopadhyay, K., Garrison, N. K., Hinton, D. M., Bacon, C. W., Khush, G. S., Peck, H. D., & Datta, N. (1996). Identification and characterization of bacterial endophytes of Rice. Mycopathologia, 134(3), 151-159.

Muthayya, S., Hall, J., Bagriansky, J., Sugimoto, J., Gundry, D., Matthias, D., Prigge, S., Hindle, P., Moench-Pfanner, R., & Maberly, G. (2012). Rice fortification: an emerging opportunity to contribute to the elimination of vitamin and mineral deficiency worldwide. Food and Nutrition Bulletin33(4), 296-307.

Muthayya, S., Sugimoto, J. D., Montgomery, S., & Maberly, G. F. (2014). An overview of global rice production, supply, trade, and consumption. Annals of the new york Academy of Sciences1324(1), 7-14.

Naseem, H., Ahsan, M., Shahid, M. A., & Khan, N. (2018). Exopolysaccharides producing rhizobacteria and their role in plant growth and drought tolerance. Journal of Basic Microbiology, 58(12), 1009-1022.

Pareja, L., Fernández-Alba, A. R., Cesio, V., & Heinzen, H. (2011). Analytical methods for pesticide residues in Rice. TrAC Trends in Analytical Chemistry, 30(2), 270-291.

Pedraza, R., Motok, J., Tortora, M., Salazar, S., & Díaz-Ricci J. (2007). Natural occurrence of Azospirillum brasilense in strawberry plants. Plant and Soil, 295, 169-178.

Puri, A., Padda, P. K. & Chanway P. C. (2017). Nitrogen-Fixation by Endophytic Bacteria in Agricultural Crops: Recent Advances. Amanullah and Shah Fahad-ed. Nitrogen in Agriculture. doi:10.5772/intechopen.71988

Radhakrishnan, N. A., Ravi, A., Joseph, B. J., Jose, A., Jithesh, O., & Krishnankutty, R. E. (2021). Phenazine 1-carboxylic acid Producing Seed Harbored Endophytic Bacteria from Cultivated Rice Variety of Kerala and Its Broad Range Antagonism to Diverse Plant Pathogens. Probiotics and Antimicrobial Proteins, 1-8.

Rahman, M. H., & Saiga, S. (2005). Endophytic fungi (Neotyphodium coenophialum) affect the growth and mineral uptake, transport, and efficiency ratios in tall fescue (Festuca arundinacea). Plant and Soil, 272(1), 163-171.

Rangjaroen, C., Lumyong, S., Sloan, W. T., & Sungthong, R. (2019). Herbicide-tolerant endophytic bacteria of rice plants as the biopriming agents for fertility recovery and disease suppression of unhealthy rice seeds. BMC Plant Biology19, 1-16. doi:10.1186/s12870-019-2206-z

Ray, D. K., Mueller, N. D., West, P. C., & Foley, J. A. (2013). Yield trends are insufficient to double global crop production by 2050. PloS one, 8(6), e66428.

Raymaekers, K., Ponet, L., Holtappels, D., Berckmans, B., & Cammue, B. P. A. (2020). Screening for novel biocontrol agents applicable in plant disease management–A  review.   Biological Control, 144, 104240. doi:10.1016/j.biocontrol.2020.104

Roy, S., Mili, C., Talukdar, R., Wary, S., & Tayung, K. (2021). Seed-borne endophytic fungi associated with some indigenous rice varieties of north-east India and their growth promotion and antifungal potential. International Journal of Agricultural Research, 55(5), 603-608.

Rungin, S., Indananda, C., Suttiviriya, P., Kruasuwan, W., Jaemsaeng, R., & Thamchaipenet, A. (2012). Plant growth-enhancing effects by a siderophore-producing endophytic streptomycete isolated from a Thai jasmine rice plant (Oryza sativa L. cv. KDML105). Antonie Van Leeuwenhoek102(3), 463-472.

Saikia, K., & Bora, L. C. (2021). Exploring actinomycetes and endophytes of rice ecosystem for induction of disease resistance against the bacterial blight of Rice. European Journal of Plant Pathology, 159(1), 67-79.

Sev, T. M., Khai, A. A., Aung, A., & Yu, S. S. (2016). Evaluation of endophytic bacteria from some rice varieties for plant growth-promoting activities. Journal of Scientific and Innovative Research5(4), 144-148.

Shabanamol, S., Divya, K., George, T. K., Rishad, K. S., Sreekumar, T. S., & Jisha, M. S. (2018). Characterization and in planta nitrogen fixation of plant growth promoting endophytic diazotrophic Lysinibacillus sphaericus isolated from Rice (Oryza sativa). Physiological and Molecular Plant Pathology102, 46-54.

Shen, F. T., Yen, J. H., Liao, C. S., Chen, W. C., & Chao, Y. T. (2019). Screening of Rice endophytic biofertilizers with fungicide tolerance and plant growth-promoting characteristics. Sustainability11(4), 1133.

Sherpa, M. T., Sharma, L., Bag, N., & Das, S. (2021) Isolation, characterization, and evaluation of native rhizobacterial consortia developed from the rhizosphere of rice grown in organic state Sikkim, India, and their effect on plant growth. Frontiers in Microbiology, 12, 713660.

Shivappa, R., Navadagi, D. B., Baite, M. S., Yadav, M. K., Rathinam, P. S., Umapathy, K., Pati, P., & Rath, P. C. (2021). Emerging minor diseases of Rice in India: losses and management strategies. In Integrative Advances in Rice Research. IntechOpen.

Shrestha, B. K., Karki, H. S., Groth, D. E., Jungkhun, N., & Ham, J. H. (2016). Biological control activities of rice-associated Bacillus sp. strain against sheath blight and bacterial panicle blight of Rice. PloS one, 11(1), e0146764.

Shultana, R., Kee Zuan, A. T., Yusop, M. R., & Saud, H. M. (2020). Characterization of salt-tolerant plant growth-promoting rhizobacteria and the effect on growth and yield of saline-affected Rice. PLoS One15(9), e0238537.

Singh, K. M., Jha, A., Meena, M., & Singh, R. (2012). Constraints of rainfed rice production in India: an overview. Innovations in Rice Production, Ed: PK Shetty, MR Hegde and M. Mahadevappa, National Institute of Advance Studies, Indian Institute of Science Campus, Bangalore, 71-84.

Singh, P. K., Mishra, M. N., Hore, D. K., & Verma, M. R. (2006). Genetic divergence in lowland rice of northeastern region of India. Communication in Biometry and Crop Science, 1(1), 35-40.

Singh, R. K, Mishra, R. P., Jaiswal, H. K., Kumar, V., Pandey, S. P., Rao, S. B., & Annapurna, K. (2006). Isolation and identification of natural endophytic rhizobia from Rice (Oryza sativa L.) through rDNA PCR-RFLP and sequence analysis. Current Microbiology, 52(5), 345-349.

Singh, S., Routaray, S., Singh, U. D., & Singh, R. K. (2003). Boro rice in Assam: status and strategy for higher productivity. Boro rice, 83-98. ICAR.

Stoltzfus, J. R., So, R., Malarvithi, P. P., Ladha, J. K., & De Bruijn, F. J. (1997). Isolation of endophytic bacteria from Rice and assessment of their potential for supplying Rice with biologically fixed nitrogen. Plant and Soil, 194(1), 25-36.

Tamreihao, K., Nimaichand, S., & Ningthoujam, D. S. (2018). Antagonistic and plant growth promoting Bacillus sp MBRL 576 enhances the growth and yield of Rice (Oryza sativa L.). ORYZA- An International Journal on Rice, 55(1), 202-213.

Thakuria, D., Talukdar, N. C., Goswami, C., Hazarika, S., Boro, R. C., & Khan, M. R. (2004). Characterization and screening of bacteria from rhizosphere of Rice grown in acidic soils of Assam. Current Science, 978-985.

Tian, F., Ding, Y., Zhu, H., Yao, L. & Du, B. (2009). Genetic diversity of siderophore-producing bacteria of tobacco rhizosphere. Brazilian Journal of Microbiology, 40 (Suppl 2), 276-284.

Tian, X. L., Cao, L. X., Tan, H. M., Zeng, Q. G., Jia, Y. Y., Han, W. Q., & Zhou, S. N. (2004). Study on the communities of endophytic fungi and endophytic actinomycetes from Rice and their antipathogenic activities in vitro. World Journal of Microbiology and Biotechnology, 20(3), 303-309.

Toyoda, H., & Utsumi, R. (1991). Method for the prevention of Fusarium diseases and microorganisms used for the same. U.S. patent 4, 988,586.

Verma, S. C., Ladha, J. K., & Tripathi, A. K. (2001). Evaluation of plant growth promoting and colonization ability of endophytic diazotrophs from deep water rice. Journal of Biotechnology, 91(2-3), 127-141.

Viswanathan, R., & Samiyappan, R. (1999). Induction of systemic resistance by plant growth-promoting rhizobacteria against red rot disease caused by Colletotrichum falcatum went in sugarcane, p. 24–39. In Proceedings of the Sugar Technology Association of India, vol. 61. Sugar Technology Association, New Delhi, Indi.

Walitang, D. I., Kim, K., Madhaiyan, M., Kim, Y. K., Kang, Y., & Sa, T. (2017). Characterizing endophytic competence and plant growth promotion of bacterial endophytes inhabiting the seed endosphere of Rice. BMC Microbiology17(1), 1-13.

Walsh, U. F., Morrissey, J. P., & O'Gara, F. (2001). Pseudomonas for biocontrol of phytopathogens: from functional genomics to commercial exploitation. Current Opinion in Biotechnology12(3), 289-295.

Wang, H., Wen, K., Zhao, X., Wang, X., Li, A., & Hong, H. (2009). The inhibitory activity of endophytic Bacillus sp. strain CHM1 against plant pathogenic fungi and its plant growth-promoting effect. Crop Protection28(8), 634-639.

Wang, L., Zhang, L., Liu, Z., Zhao, D., Liu, X., Zhang, B., ... & Li, J. (2013). A minimal nitrogen fixation gene cluster from Paenibacillus sp. WLY78 enables expression of active nitrogenase in Escherichia coli. PLoS genetics9(10), e1003865.

Waqas, M., Khan, A. L., & Lee, I. J. (2014). Bioactive chemical constituents produced by endophytes and effects on rice plant growth. Journal of Plant Interactions, 9(1), 478-487.

Widiantini, F., Herdiansyah, A., & Yulia, E. (2017). Biocontrol potential of endophytic bacteria isolated from healthy rice plant against rice blast disease (Pyricularia oryzae Cav.). KnE Life Sciences, 287-295.

Willocquet, L., & Savary, S. (2011). Resistance to rice sheath blight (Rhizoctonia solani Kühn)[(teleomorph: Thanatephorus cucumeris (AB Frank) Donk.] disease: current status and perspectives. Euphytica178(1), 1-22.

Xue, L., Yang, C., Jihong, W., Lin, L., Yuqiang, Z., Zhitong, J., Yanxin, W., Zhoukun, L., Lei, F., & Zhongli, C. (2022). Biocontrol potential of Burkholderia sp. BV6 against the rice blast fungus Magnaporthe oryzae. Journal of Applied Microbiology133(2), 883-897.

Zhang, L., & Birch, R. G. (1996). Biocontrol of sugar cane leaf scald disease by an isolate of Pantoea dispersa which detoxifies albicidin phytotoxins. Letters in Applied Microbiology22(2), 132-136.

Zhao, J., Zhao, X., Wang, J., Gong, Q., Zhang, X., & Zhang, G. (2020). Isolation, identification, and characterization of endophytic bacterium Rhizobium oryzihabitans sp. Nov., from rice root with biotechnological potential in agriculture. Microorganisms8(4), 608.

Zhou, J., Li, P., Meng, D., Gu, Y., Zheng, Z., Yin, H., Zhou, Q., & Li, J. (2020). Isolation, characterization and inoculation of Cd tolerant rice endophytes and their impacts on rice under Cd contaminated environment. Environmental Pollution260, 113990.

Zinniel, D. K., Lambrecht, P., Harris, N. B., Feng, Z., Kuczmarski, D., Higley, P., Ishimaru, C. A., Arunakumari, A., Barletta, R. G., & Vidaver, A. K. (2002). Isolation and characterization of endophytic colonizing bacteria from agronomic crops and prairie plants. Applied and Environmental Microbiology68(5), 2198-2208.

 


 

 


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