Bacterial Community Structure, Diversity, and Fertility of Soil with and without Press Mud in Two Sites in Panay, Philippines
Post pesticide survival of mushrooms and termites in cocoa
Keywords:Bacterial commuinty, Bacterial diversity, Organic fertilizer, Press mud
Sugarcane farmers commonly use press mud as organic fertilizer to improve the properties of soil and increase crop production. This study compared the effects of press mud on bacterial community structure, bacterial diversity, and physicochemical parameters of sugar mill soil in two sites, the URC Passi Sugar Central and Passi Sugar Central, Inc. both in Panay, Philippines. DNA and soil analyses were conducted to characterize the soil samples with and without press mud from both sites. The results showed that all nutrient contents increased in both areas after press mud application, except in URC Passi Sugar Central, where no increase in phosphorus and sulfur was observed. Bacterial diversity did not significantly increase six months after press mud application. Community pattern results showed that if soil samples within sites were compared, soil with press mud was significantly higher compared to the soil without press mud in terms of OTU richness (Capiz sugar central: 46.00±1.00, 40.00±1.50, respectively; URC Passi Sugar Central: 48.00±0.50, 45.00±0.00, respectively) and carrying capacity (Capiz sugar central: 169±7.36, 125±9.48, respectively; URC Passi Sugar Central: 181±3.80, 162±0.00, respectively) (p<0.05). The same trend was observed in soil samples between sites that were compared. Soil without press mud from URC Passi Sugar Central had a significantly higher compared with soil without press mud of Capiz Sugar Central in terms of OTU richness (45.00±0.00, 40.00±1.50, respectively) and carrying capacity (162±0.00, 125±9.48, respectively) (p<0.05). However, no significant difference was observed in soil with press mud between the two sites in OTU richness, carrying capacity, Shannon, and Evenness analyses (p>0.05). The phylogenetic tree analysis showed that Massilia sp. is closely related
to Burkholderia arboris, and Lysobacter sp. is closely related to both Massilia sp.and B. arboris. Generally, press mud application helps increase the available nutrients, diversity, and community patterns in soil, making it good organic fertilizer.
Kumar S, Meena RS, Jinger D et al. (2017) Use of press mud compost for improving crop productivity and soil health. International Journal of Chemical
Studies 5: 384-389.
Sardar S, Ilyas S, Raza M et al. (2012) Compost fertilizer production from sugar press mud (SPM). International Journal of Chemical and Environmental Engineering 3: 39-43.
Shankaraiah C, Murthy K (2005) Effect of enriched press mud cake on growth, yield and quality of sugarcane. Sugar Tech 7(2-3): 1–4. doi:10.1007/bf02942519
Bokhtiar SM, Paul GC, Rashid MA, Rahman BM (2005) Effect of press mud and organic nitrogen on soil fertility and yield of sugarcane grown in high ganges river flood plain soils of Bangladesh. Indian Sugar L1:235–240.
Teshome Z, Abejehu G, Abejehu H (2014) Effect of nitrogen and compost on sugarcane (Saccharum officinarum L.) at Metahara Sugarcane Plantation. Advances in Crop Science and Technology 02 (05). doi:10.4172/2329-8863.1000153
Karwal M, Kaushik A (2020) Co-composting and vermicomposting of coal fly-ash with press mud: Changes in nutrients, micro-nutrients and enzyme activities, Environmental Technology & Innovation.doi: 10.1016/j.eti.2020.100708.
Bureau of Agriculture and Fisheries Standards (2016) Organic soil amendments. http://organic.da.gov.ph/images/downloadables/PNS/PNS-Organic-Soil- Amendments-PNS-BAFS-40-2016.pdf. Accessed date: July 2021
Lori M, Symnaczik S, Mader P et al. (2017) Organic farming enhances soil microbial abundance and activity—A meta-analysis and meta-regression. PLOS ONE 12(7): e0180442. doi: 10.1371/journal.pone.0180442
Schmidt IK, Jonasson S, Shaver GR et al. (2002) Mineralization and distribution of nutrients in plants and microbes in four arctic ecosystems: responses to warming. Plant and Soil 242(1): 93–106. doi: 10.1023/a:1019642007929
Prashar P, Shah S (2016) Impact of fertilizers and pesticides on soil microflora in agriculture. Sustainable Agriculture Reviews: 331–361. doi:10.1007/978-3-319-26777-7_8
Ortiz A, Sansinenea E (2022) The role of beneficial microorganisms in soil quality and plant health. Sustainability 14 (5358): doi: 10.3390/su14095358
Jacoby R, Peukert M, Succurro A et al. (2017) The role of soil microorganisms in plant mineral nutrition—Current knowledge and future directions. Frontiers in Plant Science 8 (1617): doi:10.3389/fpls.2017.01617
Liao, Liang Y, Huang D (2018). Organic farming improves soil microbial abundance and diversity under greenhouse condition: A case study in Shanghai (Eastern China). Sustainability 10 (10): 3825. doi: 10.3390/su10103825
Zhou J, Deng Y, Shen L et al. (2016) Temperature mediates continental-scale diversity of microbes in forest soils. Nature Communications 7 (12083). doi: 10.1038/ncomms12083.
Achife C, Udeme J, Bala JD, Oyeleke SB (2021) Microbial population of soil and water around petroleum depot Suleja, Nigeria, and their hydrocarbon utilisation. International Journal of Life Sciences and Biotechnology 4(1): 90- 113. doi: 10.38001/ijlsb.791853
Maron PA, Sarr A, Kaisermann A et al. (2018) High microbial diversity promotes soil ecosystem functioning. Applied and Environmental Microbiology 84(9): doi:10.1128/aem.02738-17
Jarupula S, Amitava R, Devika OS et al. (2022) Microbiome as a key player in sustainable agriculture and human health. Frontiers in Soil Science. doi: 10.3389/fsoil.2022.821589
Chakraborty K, Mistri D (2015) Soil fertility and its' impact on agricultural productivity: A study in Sapar Mouza, Burdwan-I C.D. Block, West Bengal. International Journal of Humanities & Social Science Studies (IJHSSS).
Sri Pujiastuti E, Ritha Tarigan J, Sianturi E, Bernardus Ginting B (2018) The effect of chicken manure and beneficial microorganisms of EM-4 on growth and yield of Kale (Brassica oleraceae acephala) grown on Andisol. Earth and Environmental Science 205 (012020): doi: 10.1088/1755-1315/205/1/012020.
Boonyuen N, Manoch L, Chamswarng C et al. (2014) Fungal occurrence on sugarcane filter cake and bagasse isolated from sugar refineries in Thailand. Thai Journal of Agricultural Science 47: 77-86.
Oliveira T, Lopes V, Barbosa F et al. (2016) Fungal communities in press mud composting harbour beneficial and detrimental fungi for human welfare. Environmental Biology. Microbiology 162: 1147-1156. doi: 10.1099/mic.0.000306
Rao M, Sivagnanam S, Syed F (2016) Isolation, characterization and identification of predominant microorganisms from agro-waste. Der Pharmacia Lettre, 8 (5):79-86
Puspita ID, Kamagata Y, Tanaka M et al. (2012) Are uncultivated bacteria really uncultivable? Microbes and Environments.doi:10.1264/jsme2.ME12092
Bastida F, Eldridge DJ, Kenny C et al. (2021) Soil microbial diversity–biomass relationships are driven by soil carbon content across global biomes. Multidisciplinary Journal of Microbial Ecology. doi:10.1038/s41396-021-00906-0
Jung D, Seo E, Owen JS et al. (2018) Application of the filter plate microbial trap (FPMT), for cultivating thermophilic bacteria from thermal springs in Barguzin area, eastern Baikal, Russia. Bioscience, Biotechnology, and Biochemistry 82 (9): 1624-1632.
Fry J (2000) Bacterial diversity and 'unculturables. Microbiology Today. 27.
Mills D (2012) A review of molecular methods for microbial community profiling of beer and wine. Journal of the American Society of Brewing Chemists. doi: 10.1094/ASBCJ-2012-0709-01.
Hwanhlem N, Suwansri S, Domig KJ, Saimmai A (2017) Study of bacterial diversity by PCR-DGGE Technique and Screening of bacteriocin-producing lactic acid bacteria in feces of pig cultured by traditional methodin southern thailand. Journal of Applied Microbiological Research 1 (1): 01-06.
Klindworth A, Pruesse E, Schweer T et al. (2013) Evaluation of general 16S ribosomal RNA gene PCR primers for classical and next-generation sequencing-based diversity studies. Nucleic Acids Research 41(1). doi: 10.1093/nar/gks808
Green SJ, Leigh MB, Neufeld JD (2010) Denaturing Gradient Gel Electrophoresis (DGGE) for Microbial Community Analysis. Handbook of Hydrocarbon and Lipid Microbiology: 4137–4158. doi:10.1007/978-3-540-77587-4_323
Niemi R, Heiskanen I, Wallenius K, Lindström K (2001) Extraction and purification of DNA in rhizosphere soil samples for PCR-DGGE analysis of bacterial consortia. Journal of Microbiological Methods 45(3): 155–165. doi:10.1016/s0167-7012(01)00253-6
Kinene T, Wainaina J, Maina S, Boykin LM (2016). Rooting Trees, Methods for. Encyclopedia of Evolutionary Biology: 489–493. doi:10.1016/b978-0-12-800049-6.00215-8
Togo AH, Diop A, Dubourg G et al. (2019) Anaerotruncus massiliensis sp. nov., a succinate-producing bacterium isolated from human stool from an obese patient after bariatric surgery. New Microbes and New Infections 29 (100508): doi: 10.1016/j.nmni.2019.01.004
Mar JC, Harlow TJ, Ragan MA (2005) Bayesian and maximum likelihood phylogenetic analyses of protein sequence data under relative branch-length differences and model violation. BioMed Central Evolutionary Biology 5: 8. doi: 10.1186/1471-2148-5-8
Yuan KH, Bentler PM (2000) Three Likelihood-Based Methods for Mean and Covariance Structure Analysis with Nonnormal Missing Data. Sociological Methodology 30(1): 165–200. doi: 10.1111/0081-1750.00078
Schliep K, Potts AJ, Morrison DA, Grimm GW (2017) Intertwining phylogenetic trees and networks. Methods in Ecology and Evolution. doi:10.1111/2041-210X.12760
Kumar S, Stecher G, Li M et al. (2018) MEGA X: Molecular evolutionary genetics analysis across computing platforms. Molecular Biology and Evolution 35:1547-1549.
Tamura K, Kumar S (2002) Evolutionary distance estimation under heterogeneous substitution pattern among lineages. Molecular Biology and Evolution 19:1727-1736.
Dissanayake AJ, Bhunjun CS, Maharachchikumbura SSN, Liu JK (2020) Applied aspects of methods to infer phylogenetic relationships amongst fungi. Mycosphere 11(1): 2652–2676. doi 10.5943/mycosphere/11/1/18
Hillis DM, Bull JJ (1993) An empirical test of bootstrapping as a method for assessing confidence in phylogenetic analysis. Systematic Biolog 2: 182–192. doi: 10.1093/sysbio/42.2.182
Sharma S, and Singh DK (2017) Temporal variations in diazotrophic communities and nifH transcripts level across the agricultural and fallow land at Jaipur, Rajasthan, India. Indian journal of Microbiology 57(1): 92–99. doi: 10.1007/s12088-016-0634-0
Islam MZ, Khalequzzaman M, Bashar MK et al. (2018) Variability assessment of aromatic rice germplasm by pheno-genomic traits and population structure analysis. Scientific reports 8(1): 9911. doi: 10.1038/s41598-018-28001-z
Yeom DJ, Kim JH (2011) Comparative evaluation of species diversity indices in the natural deciduous forest of Mt. Jeombong. Forest Science and Technology 7 (2) 68-74: doi: 10.1080/21580103.2011.573940
Curd EE, Martiny JBH, Li H, Smith TB (2018) Bacterial diversity is positively correlated with soil heterogeneity. Ecosphere 9(1): e02079. doi: 10.1002/ecs2.2079
Gahan J, and Schmalenberger A (2014) The role of bacteria and mycorrhiza in plant sulfur supply. Frontiers in Plant Science 5 (723): doi:10.3389/fpls.2014.00723
Nacke H, Thurmer A, Wollherr A et al. (2011) Pyrosequencing based assessment of bacterial community structure along different management types in German forest and grassland soils. PLoS ONE. doi: 10.1371/journal.pone.0017000
McCauley A, Jones C, Olson-Rutz K (2017) Soil pH and organic matter. MSU Extension. US.
Odutola OS (2019) Introductory chapter: relevance of soil pH to agriculture. Soil pH for Nutrient Availability and Crop performance.doi:10.5772/intechopen.82551
Panikov, N (2010) Microbial Ecology. In: (Wang, L.K., Pereira, N.C. and Hung, Yung-Tse, eds) "handbook of environmental engineering" The Humana Press, Inc., Totowa, NJ, USA 10: doi:10.1007/978-1-60327-140-0_4.
Madigan MT, Martinko JM, Bender KS et al. (2015) Brock biology of microorganisms (Fourteenth edition). Boston: Pearson.
Lin W, Lin M, Zhou H et al. (2019) The effects of chemical and organic fertilizer usage on rhizosphere soil in tea orchards. PLOS ONE 14(5): e0217018.
Yuan X, Knelman JE, Wang D et al. (2017) Patterns of soil bacterial richness and composition tied to plant richness, soil nitrogen, and soil acidity in Alpine Tundra. Arctic, Antarctic, and Alpine Research 49(3)K44–453. doi: 10.1657/aaar0016-050
Al-Kaf H, Huyop F, Zainol N (2020) Lactobacillus acidophilus and non-digestible carbohydrates: A review. International Journal of Life Sciences and Biotechnology. doi:10.38001/ijlsb.810318.
Wang DD, Zhao W, Reyila M et al. (2022) Diversity of Microbial Communities of Pinus sylvestris var. mongolica at Spatial Scale. Microorganisms. doi:10.3390/microorganisms10020371
Lima I, Wright M (2018) Microbial stability of worm castings and sugarcane filter mud compost blended with biochar. Cogent Food & Agriculture 4 (1): 1423719. doi:10.1080/23311932.2018.1423719
Boehme L, Langer U, Böhme F (2004) Classification of soil microorganisms based on growth properties: a critical view of some commonly used terms. Journal of Plant Nutrition and Soil Science: 267-269.
Venail PA, Vives MJ (2013) Positive effects of bacterial diversity on ecosystem functioning driven by complementarity effects in a bioremediation context. PLoS ONE 8(9): doi: 10.1371/journal.pone.0072561
Podmirseg SM, Waldhuber S, Knapp BA (2019) Robustness of the autochthonous microbial soil community after amendment of cattle manure or its digestate. Biology and Fertility of Soils 55: 565–576 doi: 10.1007/s00374-019-01371-
Elsas JD, Trevors J, Rosado AS, Nannipieri, P (2019) Modern soil microbiology, Third Edition. CRC Press. doi:10: 1498763537
Singh H, Won K, Du J et al. (2015) Lysobacter agri sp. nov., a bacterium isolated from soil. Antonie van Leeuwenhoek 108: doi:10.1007/s10482-015-0510-7.
Gomez ER, Postma J, Raaijmakers JM, De Bruijn I (2015) Diversity and activity of Lysobacter species from disease suppressive soils. Frontiers in Microbiology 6: doi:10.3389/fmicb.2015.01243
Wang J, Zhang J, Pang H et al. (2011). Massilia flava sp nov., isolated from soil. International journal of systematic and evolutionary microbiology 62 (580-5): doi:10.1099/ijs.0.031344-0.
Agematu H, Suzuki K, Tsuya H (2011) Massilia sp. BS-1, a novel violacein-producing bacterium isolated from soil. Bioscience, Biotechnology, and Biochemistry. doi:10.1271/bbb.100729
Raths R, Peta V, Bucking H (2020) Massilia arenosa sp. nov., isolated from the soil of a cultivated maize field. Int J Syst Evol Microbiol 70 (6):3912-3920. doi: 10.1099/ijsem.0.004266.
Spain A, Krumholz L, Elshahed M (2009) Abundance, composition, diversity and novelty of soil Proteobacteria. ISME J 3: 992–1000.
Wang L, Wang L, Zhan X et al. (2019) Response mechanism of microbial community to the environmental stress caused by the different mercury concentration in soils. Ecotoxicology and Environmental Safety: 109906. doi: 10.1016/j.ecoenv.2019.109906
Zheng BX, Bi QF, Hao XL et al. (2017) Massilia phosphatilytica sp. nov., a phosphate solubilizing bacteria isolated from a long-term fertilized soil. International Journal of Systematic and Evolutionary Microbiology (8): 2514-2519. doi: 10.1099/ijsem.0.001916
De Bruijn I, Cheng X, De Jager V et al. (2015) Comparative genomics and metabolic profiling of the genus Lysobacter. BioMed Central Genomics 16(1): doi:10.1186/s12864-015-2191-z
Panda P, Choudhury A, Chakraborty S et al. (2017) Phosphorus solubilizing bacteria from tea soils and their phosphate solubilizing abilities. International Journal of Bioresource Science 4 (113). doi:10.5958/2454-9541.2017.00018.4.
Arfarita N, Imai T, Prayogo C (2022) Utilization of Various Organic Wastes as Liquid Biofertilizer Carrier Agents towards Viability of Bacteria and Green Bean Growth. Journal of Tropical Life Science 12 (1): 1 – 10. doi: 10.11594/jtls.12.01.01
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