Environmental factors affecting microbiota dynamics during traditional solid-state fermentation of chinese daqu starter

Frontiers in Microbiology

Volumn 7, Issue AUG, 2016, Pages

  Li, Pan ^a   Lin, Weifeng ^a   Liu, Xiong ^a   Wang, Xiaowen ^a   Luo, Lixin ^a  

^a SOUTH CHINA UNIVERSITY OF TECHNOLOGY   (China)

Author keywords

Daqu; Environmental factors; Microbiota dynamics; Relationship; Solid state fermentation; Temperature

Indexed keywords

GLUCAN 1,4 ALPHA GLUCOSIDASE; GLUCOSE;

ALCOHOLIC BEVERAGE; ARTICLE; BACILLALES; BIOINFORMATICS; BUDDING YEAST; CHINA; DNA EXTRACTION; ENTEROBACTERIALES; ENVIRONMENTAL FACTOR; ENVIRONMENTAL PARAMETERS; ENVIRONMENTAL STRESS; ENZYME ACTIVITY; EUROTIALES; LACTOBACILLALES; MICROBIAL BIOMASS; MICROBIAL COMMUNITY; MICROBIAL DIVERSITY; MICROBIAL MORPHOLOGY; MICROBIAL POPULATION DYNAMICS; MICROFLORA; MOISTURE; MUCORALES; NONHUMAN; PH; PHYSICAL CHEMISTRY; POLYMERASE CHAIN REACTION; RICKETTSIALES; SOLID STATE FERMENTATION; SPECIES RICHNESS; STARTER CULTURE; STREPTOPHYTA; TEMPERATURE;

EID: 84989213205     PISSN: None     EISSN: 1664302X     Source Type: Journal    
DOI: 10.3389/fmicb.2016.01237     Document Type: Article

References (43)

1. Adams, H. E., Crump, B. C., and Kling, G. W. (2010). Temperature controls on aquatic bacterial production and community dynamics in arctic lakes and streams. Environ. Microbiol. 12, 1319-1333. doi: 10.1111/j.1462-2920.2010.02176.x
2. Awasthi, M. K., Pandey, A. K., Bundela, P. S., and Khan, J. (2015). Co-composting of organic fraction of municipal solid waste mixed with different bulking waste: characterization of physicochemical parameters and microbial enzymatic dynamic. Bioresour. Technol. 182, 200-207. doi: 10.1016/j.biortech.2015.01.104
3. Awasthi, M. K., Pandey, A. K., Khan, J., Bundela, P. S., Wong, J. W., and Selvam, A. (2014). Evaluation of thermophilic fungal consortium for organic municipal solid waste composting. Bioresour. Technol. 168, 214-221. doi: 10.1016/j.biortech.2014.01.048
4. Botella, L., Santamaría, O., and Diez, J. (2010). Fungi associated with the decline of Pinus halepensis in Spain. Fungal Divers. 40, 1-11. doi: 10.1007/s13225-010-0025-5
5. Brenner, K., You, L., and Arnold, F. H. (2008). Engineering microbial consortia: a new frontier in synthetic biology. Trends Biotechnol. 26, 483-489. doi: 10.1016/j.tibtech.2008.05.004
6. Caporaso, J. G., Kuczynski, J., Stombaugh, J., Bittinger, K., Bushman, F. D., Costello, E. K., et al. (2010). QIIME allows analysis of high-throughput community sequencing data. Nat. Methods 7, 335-336. doi: 10.1038/nmeth.f.303
7. Chroni, C., Kyriacou, A., Manios, T., and Lasaridi, K. E. (2009). Investigation of the microbial community structure and activity as indicators of compost stability and composting process evolution. Bioresour. Technol. 100, 3745-3750. doi: 10.1016/j.biortech.2008.12.016
8. Clarke, K. R. (1993). Non-parametric multivariate analyses of changes in community structure. Aust. J. Ecol. 18, 117-143. doi: 10.1111/j.1442-9993.1993.tb00438.x
9. Coman, C., Chiriac, C. M., Robeson, M. S., Ionescu, C., Dragos, N., Barbu-Tudoran, L., et al. (2015). Structure, mineralogy, and microbial diversity of geothermal spring microbialites associated with a deep oil drilling in Romania. Front. Microbiol. 6:253. doi: 10.3389/fmicb.2015.00253
10. De Gannes, V., Eudoxie, G., Bekele, I., and Hickey, W. J. (2015). Relations of microbiome characteristics to edaphic properties of tropical soils from Trinidad. Front. Microbiol. 6:1045. doi: 10.3389/fmicb.2015.01045
11. Edgar, R. C. (2013). UPARSE: highly accurate OTU sequences from microbial amplicon reads. Nat. Methods 10, 996-998. doi: 10.1038/nmeth.2604
12. Freedman, Z., and Zak, D. R. (2015). Soil bacterial communities are shaped by temporal and environmental filtering: evidence from a long-term chronosequence. Environ. Microbiol. 17, 3208-3218. doi: 10.1111/1462-2920.12762
13. Gilbert, J. A., Steele, J. A., Caporaso, J. G., Steinbrück, L., Reeder, J., Temperton, B., et al. (2012). Defining seasonal marine microbial community dynamics. ISME J. 6, 298-308. doi: 10.1038/ismej.2011.107
14. 2. Ecol. Lett. 13, 564-575. doi: 10.1111/j.1461-0248.2010.01453.x
15. Hu, X., Du, H., Ren, C., and Xu, Y. (2016). Illuminating anaerobic microbial community and cooccurrence patterns across a quality gradient in Chinese liquor fermentation pit muds. Appl. Environ. Microbiol. 82, 2506-2515. doi: 10.1128/AEM.03409-15
16. Huang, Y., Kuang, Z., Wang, W., and Cao, L. (2016). Exploring potential bacterial and fungal biocontrol agents transmitted from seeds to sprouts of wheat. Biol. Control 98, 27-33. doi: 10.1016/j.biocontrol.2016.02.013
17. Insam, H., and De Bertoldi, M. (2007). "Microbiology of the composting process," in Compost Science and Technology, eds L. F. Diaz, M. De Bertoldi, W. Bidlingmaier, and E. Stentiford (Amsterdam: Elsevier), 25-48. doi: 10.1016/S1478-7482(07)80006-6
18. Kalogeris, E., Christakopoulos, P., Katapodis, P., Alexiou, A., Vlachou, S., Kekos, D., et al. (2003). Production and characterization of cellulolytic enzymes from the thermophilic fungus Thermoascus aurantiacus under solid state cultivation of agricultural wastes. Process Biochem. 38, 1099-1104. doi: 10.1016/S0032-9592(02)00242-X
19. Li, P., Liang, H., Lin, W. T., Feng, F., and Luo, L. X. (2015). Microbiota dynamics associated with environmental conditions and potential roles of cellulolytic communities in traditional Chinese cereal starter solid-state fermentation. Appl. Environ. Microbiol. 81, 5144-5156. doi: 10.1128/AEM.01325-15
20. Liu, D., Zhang, R., Wu, H., Xu, D., Tang, Z., Yu, G., et al. (2011). Changes in biochemical and microbiological parameters during the period of rapid composting of dairy manure with rice chaff. Bioresour. Technol. 102, 9040-9049. doi: 10.1016/j.biortech.2011.07.052
21. Lozupone, C., Lladser, M. E., Knights, D., Stombaugh, J., and Knight, R. (2011). UniFrac: an effective distance metric for microbial community comparison. ISME J. 5, 169-172. doi: 10.1038/ismej.2010.133
22. Lu, L., Zeng, G., Fan, C., Guo, J., Zhang, J., Chen, M., et al. (2015). Environmental factors shaping the abundance and distribution of laccase-encoding bacterial community with potential phenolic oxidase capacity during composting. Appl. Microbiol. Biotechnol. 99, 9191-9201. doi: 10.1007/s00253-015-6754-3
23. Miller, G. L. (1959). Use of dinitrosalicylic acid reagent for determination of reducing sugar. Anal. Chem. 31, 426-428. doi: 10.1021/ac60147a030
24. Miller, S. R., Strong, A. L., Jones, K. L., and Ungerer, M. C. (2009). Bar-coded pyrosequencing reveals shared bacterial community properties along the temperature gradients of two alkaline hot springs in Yellowstone National Park. Appl. Environ. Microbiol. 75, 4565-4572. doi: 10.1128/AEM.02792-08
25. Mouchacca, J. (2007). Heat tolerant fungi and applied research: addition to the previously treated group of strictly thermotolerant species. World J. Microbiol. Biotechnol. 23, 1755-1770. doi: 10.1007/s11274-007-9426-3
26. Muyzer, G., De Waal, E. C., and Uitterlinden, A. G. (1993). Profiling of complex microbial populations by denaturing gradient gel electrophoresis analysis of polymerase chain reaction-amplified genes coding for 16S rRNA. Appl. Environ. Microbiol. 59, 695-700.
27. Nie, Z., Zheng, Y., Wang, M., Han, Y., Wang, Y., Luo, J., et al. (2013). Exploring microbial succession and diversity during solid-state fermentation of Tianjin duliu mature vinegar. Bioresour. Technol. 148, 325-333. doi: 10.1016/j.biortech.2013.08.152
28. Peiffer, J. A., Spor, A., Koren, O., Jin, Z., Tringe, S. G., Dangl, J. L., et al. (2013). Diversity and heritability of the maize rhizosphere microbiome under field conditions. Proc. Natl. Acad. Sci. U. S. A. 110, 6548-6553. doi: 10.1073/pnas.1302837110
29. QB/T 4257-2011 (2011). People's Republic of China Professional Standard. General Methods of Analysis for Daqu (QB/T 4257-2011). Beijing: Ministry of Industry and Information Technology of the People's Republic of China.
30. SB/T 10317-1999 (1999). People's Republic of China professional Standard. Measurement of Proteinase Activity (SB/T 10317-1999). Beijing: Ministry of Industry and Information Technology of the People's Republic of China.
31. Song, Z. Q., Wang, F. P., Zhi, X. Y., Chen, J. Q., Zhou, E. M., Liang, F., et al. (2013). Bacterial and archaeal diversities in Yunnan and Tibetan hot springs, China. Environ. Microbiol. 15, 1160-1175. doi: 10.1111/1462-2920.12025
32. Soni, S. K., Kaur, A., and Gupta, J. K. (2003). A solid state fermentation based bacterial α-amylase and fungal glucoamylase system and its suitability for the hydrolysis of wheat starch. Process Biochem. 39, 185-192. doi: 10.1016/S0032-9592(03)00058-X
33. Sulaiman, J., Gan, H. M., Yin, W. F., and Chan, K. G. (2014). Microbial succession and the functional potential during the fermentation of Chinese soy sauce brine. Front. Microbiol. 5:556. doi: 10.3389/fmicb.2014.00556
34. Tao, Y., Li, J., Rui, J., Xu, Z., Zhou, Y., Hu, X., et al. (2014). Prokaryotic communities in pit mud from different-aged cellars used for the production of Chinese strong-flavored liquor. Appl. Environ. Microbiol. 80, 2254-2260. doi: 10.1128/AEM.04070-13
35. Tinta, T., Vojvoda, J., Mozetic, P., Talaber, I., Vodopivec, M., Malfatti, F., et al. (2015). Bacterial community shift is induced by dynamic environmental parameters in a changing coastal ecosystem (northern Adriatic, northeastern Mediterranean Sea)-a 2-year time-series study. Environ. Microbiol. 17, 3581-3596. doi: 10.1111/1462-2920.12519
36. Troy, S. M., Nolan, T., Kwapinski, W., Leahy, J. J., Healy, M. G., and Lawlor, P. G. (2012). Effect of sawdust addition on composting of separated raw and anaerobically digested pig manure. J. Environ. Manage. 111, 70-77. doi: 10.1016/j.jenvman.2012.06.035
37. Wang, H. Y., and Xu, Y. (2015). Effect of temperature on microbial composition of starter culture for Chinese light aroma style liquor fermentation. Lett. Appl. Microbiol. 60, 85-91. doi: 10.1111/lam.12344
38. Warner, T., Mahan, S., Kelly, P., Harrus, S. (2010). "Rickettsiales," in Pathogenesis of Bacterial Infections in Animals, eds C. L. Gyles, J. F. Prescott, J. G. Songer, and C. O. Thoen (Oxford: Wiley-Blackwell), 589-621. doi: 10.1002/9780470958209.ch31
39. Xu, W., Huang, Z., Zhang, X., Li, Q., Lu, Z., Shi, J., et al. (2011). Monitoring the microbial community during solid-state acetic acid fermentation of Zhenjiang aromatic vinegar. Food Microbiol. 28, 1175-1181. doi: 10.1016/j.fm.2011.03.011
40. Zhang, J., Kobert, K., Flouri, T., and Stamatakis, A. (2014). PEAR: a fast and accurate Illumina Paired-End reAd mergeR. Bioinformatics 30, 614-620. doi: 10.1093/bioinformatics/btt593
41. Zheng, X. W., Tabrizi, M. R., Nout, M., and Han, B. Z. (2012). Daqu-a traditional Chinese liquor fermentation starter. J. Inst. Brew. 117, 82-90. doi: 10.1002/j.2050-0416.2011.tb00447.x
42. Zheng, X. W., Yan, Z., Nout, M. J., Smid, E. J., Zwietering, M. H., Boekhout, T., et al. (2014). Microbiota dynamics related to environmental conditions during the fermentative production of Fen-Daqu, a Chinese industrial fermentation starter. Int. J. Food Microbiol. 182, 57-62. doi: 10.1016/j.ijfoodmicro.2014.05.008
43. Žifcáková, L., Vetrovskỳ, T., Howe, A., and Baldrian, P. (2016). Microbial activity in forest soil reflects the changes in ecosystem properties between summer and winter. Environ. Microbiol. 18, 288-301. doi: 10.1111/1462-2920.13026