Large-scale targeted metagenomics analysis of bacterial ecological changes in 88 kimchi samples during fermentation

Food Microbiology

Volumn 66, Issue , 2017, Pages 173-183

  Lee, Moeun ^a   Song, Jung Hee ^a   Jung, Min Young ^a   Lee, Se Hee ^a   Chang, Ji Yoon ^a  

^a World Institute of Kimchi an Annex of Korea Food Research Institute   (South Korea)

Author keywords

Bacterial community; Kimchi; Lactic acid bacteria; Pyrosequencing; Vegetable fermentation

Indexed keywords

BACTERIUM; BIODIVERSITY; BRASSICA; CLASSIFICATION; FERMENTATION; GENETICS; ISOLATION AND PURIFICATION; METABOLISM; METAGENOMICS; MICROBIOLOGY; VEGETABLE;

BACTERIA; BIODIVERSITY; BRASSICA; FERMENTATION; METAGENOMICS; VEGETABLES;

EID: 85019085003     PISSN: 07400020     EISSN: 10959998     Source Type: Journal    
DOI: 10.1016/j.fm.2017.05.002     Document Type: Article

References (39)

1. Association of Official Agricultural Chemists (U.S.), Association of Official Agricultural Chemists (U.S.). Committee on Editing Methods of Analysis, Official Methods of Analysis of the Association of Official Agricultural Chemists. 1950, The Association, Washington, D.C.
2. Cha, Y.J., Lee, Y.M., Jung, Y.J., Jeong, E.J., Kim, S.J., Park, S.Y., Kim, E.J., A nationwide survey on the preference characteristics of minor ingredients for winter Kimchi. J. Korean Soc. Food Sci. Nutr. 32 (2003), 555–561.
3. Chang, J.Y., Lee, H.J., Chang, H.C., Identification of the agent from Lactobacillus plantarum KFRI464 that enhances bacteriocin production by Leuconostoc citreum GJ7. J. Appl. Microbiol. 103 (2007), 2504–2515.
4. Cho, N.C., Jhon, D.Y., Shin, M.S., Hong, Y.H., Lim, H.S., Jung, H.A., Effect of garlic concentrations on growth of microorganisms during kimchi fermentation. Korean J. Food Sci. Technol. 20 (1988), 231–235.
5. Cole, J.R., Wang, Q., Cardenas, E., Fish, J., Chai, B., Farris, R.J., Kulam-Syed-Mohideen, A.S., McGarrell, D.M., Marsh, T., Garrity, G.M., Tiedje, J.M., The Ribosomal Database Project: improved alignments and new tools for rRNA analysis. Nucleic Acids Res. 37 (2009), D141–D145.
6. Ercolini, D., High-throughput sequencing and metagenomics: moving forward in the culture-independent analysis of food microbial ecology. Appl. Environ. Microbiol. 79 (2013), 3148–3155.
7. Guan, L., Cho, K.H., Lee, J.H., Analysis of the cultivable bacterial community in jeotgal, a Korean salted and fermented seafood, and identification of its dominant bacteria. Food Microbiol. 28 (2011), 101–113.
8. Hedley, C.L., Carbohydrates in Grain Legume Seeds: Improving Nutritional Quality and Agronomic Characteristics. 2001, CABI Pub., Wallingford, Oxon, UK; New York, NY, USA.
9. Herlemann, D.P., Lundin, D., Andersson, A.F., Labrenz, M., Jurgens, K., Phylogenetic signals of salinity and season in bacterial community composition across the salinity gradient of the Baltic Sea. Front. Microbiol., 7, 2016, 1883.
10. Jang, J.Y., Lee, M.E., Lee, H.W., Lee, J.H., Park, H.W., Choi, H.J., Pyun, Y.R., Kim, T.W., Extending the shelf life of kimchi with Lactococcus lactis strain as a starter culture. Food Sci. Biotechnol. 24 (2015), 1049–1053.
11. Jeong, S.H., Lee, H.J., Jung, J.Y., Lee, S.H., Seo, H.Y., Park, W.S., Jeon, C.O., Effects of red pepper powder on microbial communities and metabolites during kimchi fermentation. Int. J. Food Microbiol. 160 (2013), 252–259.
12. Jung, J.Y., Lee, S.H., Jin, S.M., Hahn, Y., Madsen, E.L., Jeon, C.O., Metatranscriptomic analysis of lactic acid bacterial gene expression during kimchi fermentation. Int. J. Food Microbiol. 163 (2013), 171–179.
13. Jung, J.Y., Lee, S.H., Lee, H.J., Jeon, C.O., Microbial succession and metabolite changes during fermentation of saeu-jeot: traditional Korean salted seafood. Food Microbiol. 34 (2013), 360–368.
14. Kang, B.K., Cho, M.S., Ahn, T.Y., Lee, E.S., Park, D.S., The influence of red pepper powder on the density of Weissella koreensis during kimchi fermentation. Sci. Rep., 5, 2015, 15445.
15. Kim, J., Bang, J., Beuchat, L.R., Kim, H., Ryu, J.H., Controlled fermentation of kimchi using naturally occurring antimicrobial agents. Food Microbiol. 32 (2012), 20–31.
16. Kim, J.H., Park, W.P., Kim, J.S., Park, J.H., Ryu, J.D., Lee, H.G., Song, Y.O., A survey on the actual state in kimchi in Kyung-nam (I)-The study of the preference of kimchi and actual amounts of kimchi intake. J. Korean Soc. Food Nutr. 15 (2000), 139–145.
17. Kim, J.H., Park, W.P., Kim, J.S., Park, J.H., Ryu, J.D., Lee, H.G., Song, Y.O., A Survey on the actual state in kimchi in Kyung-nam (II)-The study of the notion and preference of kimchi products for sale. J. Korean Soc. Food Nutr. 15 (2000), 147–153.
18. Kim, M.H., Shin, M.S., Jhon, D.Y., Hong, Y.H., Lim, H.S., Quality characteristics of kimchi with different ingredients. J. Korean Soc. Food Nutr. 16 (1987), 268–277.
19. Kim, M.J., Kim, J.H., Oh, H.K., Chang, M.J., Kim, S.H., Seasonal variations of nutrients in Korean fruits and vegetables: examining water, protein, lipid, ascorbic acid, and beta-carotene contents. Korean J. Food Cook. Sci. 23 (2007), 423–432.
20. Kim, T.W., Lee, J.H., Kim, S.E., Park, M.H., Chang, H.C., Kim, H.Y., Analysis of microbial communities in doenjang, a Korean fermented soybean paste, using nested PCR-denaturing gradient gel electrophoresis. Int. J. Food Microbiol. 131 (2009), 265–271.
21. Kim, T.W., Lee, J.Y., Jung, S.H., Kim, Y.M., Jo, J.S., hung, D.K., Identification and distribution of predominant lactic acid bacteria in kimchi, a Korean traditional fermented food. J. Microbiol. Biotechnol. 12 (2002), 635–642.
22. Kwon, E.A., Kim, M.H., Microbial evaluation of commercially packed kimchi products. Food Sci. Biotechnol. 16 (2007), 615–620.
23. Lee, J.S., Heo, G.Y., Lee, J.W., Oh, Y.J., Park, J.A., Park, Y.H., Pyun, Y.R., Ahn, J.S., Analysis of kimchi microflora using denaturing gradient gel electrophoresis. Int. J. Food Microbiol. 102 (2005), 143–150.
24. Lee, J.Y., Choi, M.K., Kyung, K.H., Jung, H.A., Reappraisal of stimulatory effect of garlic on kimchi fermentation. Korean J. Food Sci. Technol. 40 (2008), 479–484.
25. Lee, M.E., Jang, J.Y., Lee, J.H., Park, H.W., Choi, H.J., Kim, T.W., Starter cultures for kimchi fermentation. J. Microbiol. Biotechnol. 25 (2015), 559–568.
26. Lee, S.H., Jung, J.Y., Jeon, C.O., Source tracking and succession of kimchi lactic acid bacteria during fermentation. J. Food Sci. 80 (2015), M1871–M1877.
27. Lim, S.B., Shin, S.Y., Moon, J.S., Otgonbayar, G.E., Joo, W.H., Lee, S.J., Jeon, C.O., Han, N.S., Garlic is a source of major lactic acid bacteria for early-stage fermentation of cabbage-kimchi. Food Sci. Biotechnol. 24 (2015), 1437–1441.
28. Mheen, T.I., Kwon, T.W., Effect of temperature and salt concentration on kimchi fermentation. Korean J. Food Sci. Technol. 16 (1984), 443–449.
29. Nghiem, N., Blakely, T., Cobiac, L.J., Pearson, A.L., Wilson, N., Health and economic impacts of eight different dietary salt reduction interventions. PLoS One, 10, 2015, e0123915.
30. No, H.K., Lee, S.H., Kim, S.D., Effects of ingredients on fermentation of Chinese cabbage kimchi. J. Korean Soc. Food Nutr. 24 (1995), 642–650.
31. Paik, J.E., Jung, H.A., Bae, H.J., Quality changes of cucumber kimchi prepared with different minor ingredients during fermentation. Korean J. Food Nutr. 19 (2006), 473–481.
32. Park, E.J., Chun, J., Cha, C.J., Park, W.S., Jeon, C.O., Bae, J.W., Bacterial community analysis during fermentation of ten representative kinds of kimchi with barcoded pyrosequencing. Food Microbiol. 30 (2012), 197–204.
33. Rhee, S.H., Han, J.S., Park, K.Y., Lee, K.I., Kinds and characteristics of traditional special kimchi in Pusan and Kyungnam province. J. Korean Soc. Food Nutr. 24 (1995), 734–743.
34. Shim, S.T., Kyung, K.H., Yang, Y.J., Lactic acid bacteria isolated from fermenting kimchi and their fermentation of Chinese cabbage juice. Korean J. Food Sci. Technol. 22 (1990), 373–379.
35. Shin, D.H., Kim, M.S., Han, J.S., Lim, D.K., Bak, W.S., Changes of chemical composition and microflora in commercial kimchi. Korean J. Food Sci. Technol. 28 (1996), 137–145.
36. So, M.H., Lee, Y.S., Kim, H.S., Cho, E.J., Yea, M.J., An influence of salt concentrations on growth rates of lactic acid bacteria isolated from kimchi. Korean J. Food Nutr. 9 (1996), 341–347.
37. Viander, B., Mäki, M., Palva, A., Impact of low salt concentration, salt quality on natural large-scale sauerkraut fermentation. Food Microbiol. 20 (2003), 391–395.
38. Yoon, S.I., Kim, Y.C., Lee, C., A consumer survey in Seoul area on marketed kimchi products. J. Korean Soc. Food Nutr. 3 (1988), 369–376.
39. Yu, K.W., Hwang, J.H., Fermentative characteristics of low-sodium prepared with salt replacement. Korean J. Food Nutr. 24 (2011), 753–760.