Correlation between microbiota and flavours in fermentation of Chinese Sichuan Paocai

Azeke, 2005, Nutritional value of African yambean (Sphenostylis stenocarpa L): Improvement by lactic acid fermentation, Journal of the Science of Food and Agriculture, 85, 963, 10.1002/jsfa.2052 Barrangou, 2002, Identification and characterization of Leuconostoc fallax strains isolated from an industrial sauerkraut fermentation identification and characterization of Leuconostoc fallax strains isolated from an industrial sauerkraut fermentation †, Applied and Environmental Microbiology, 68, 2877, 10.1128/AEM.68.6.2877-2884.2002 Bellemain, 2010, ITS as an environmental DNA barcode for fungi: An in silico approach reveals potential PCR biases, BMC Microbiology, 10, 189, 10.1186/1471-2180-10-189 Blandino, 2003, Cereal-based fermented foods and beverages, Food Research International, 36, 527, 10.1016/S0963-9969(03)00009-7 Bokulich, 2013, Facility-specific “house” microbiome drives microbial landscapes of artisan cheesemaking plants, Applied and Environmental Microbiology, 79, 5214, 10.1128/AEM.00934-13 Bokulich, 2013, Quality-filtering vastly improves diversity estimates from Illumina amplicon sequencing, Nature Methods, 10, 57, 10.1038/nmeth.2276 Cao, 2017, Assessment of bacterial profiles in aged, home-made Sichuan paocai brine with varying titratable acidity by PacBio SMRT sequencing technology, Food Control, 78, 14, 10.1016/j.foodcont.2017.02.006 Caplice, 1999, Food fermentations: Role of microorganisms in food production and preservation, International Journal of Food Microbiology, 50, 131, 10.1016/S0168-1605(99)00082-3 Caporaso, 2010, Correspondence QIIME allows analysis of high- throughput community sequencing data intensity normalization improves color calling in SOLiD sequencing, Nature Publishing Group, 7, 335 Ceugniez, 2017, Use of a metagenetic approach to monitor the bacterial microbiota of “Tomme d'Orchies” cheese during the ripening process, International Journal of Food Microbiology, 247, 65, 10.1016/j.ijfoodmicro.2016.10.034 Cha, 1998, Aroma-active compounds in kimchi during fermentation, Journal of Agricultural and Food Chemistry, 46, 1944, 10.1021/jf9706991 Dai, 2017, Improvement of nutritional value and bioactivity of soybean meal by solid-state fermentation with Bacillus subtilis, LWT - Food Science and Technology, 86, 1, 10.1016/j.lwt.2017.07.041 Desantis, 2006, Greengenes, a chimera-checked 16S rRNA gene database and workbench compatible with ARB, Applied and Environmental Microbiology, 72, 5069, 10.1128/AEM.03006-05 Di Cagno, 2013, Exploitation of vegetables and fruits through lactic acid fermentation, Food Microbiology, 33, 1, 10.1016/j.fm.2012.09.003 Duarte, 2012, Denaturing gradient gel electrophoresis (DGGE) in microbial ecology - insights from freshwaters, Gel Electrophoresis - Principles and Basics, 10.5772/38177 Feng, 2012, A two-step inoculation of Candida etchellsii to enhance soy sauce flavour and quality, International Journal of Food Science and Technology, 47, 2072, 10.1111/j.1365-2621.2012.03071.x Figueiredo, 2007, Factors affecting secondary metabolite production in plants: Volatile components and essential oils, Flavour and Fragrance Journal, 22, 206 de Filippis, 2016, Metatranscriptomics reveals temperature-driven functional changes in microbiome impacting cheese maturation rate, Scientific Reports, 6, 1 de Filippis, 2017, Different amplicon targets for sequencing-based studies of fungal diversity, Applied and Environmental Microbiology, 83, 1, 10.1128/AEM.00905-17 de Filippis, 2017, Metagenomics insights into food fermentations, Microbial Biotechnology, 10, 91, 10.1111/1751-7915.12421 Iacumin, 2009, Description of the microflora of sourdoughs by culture-dependent and culture-independent methods, Food Microbiology, 26, 128, 10.1016/j.fm.2008.10.010 Jung, 2013, Metatranscriptomic analysis of lactic acid bacterial gene expression during kimchi fermentation, International Journal of Food Microbiology, 163, 171, 10.1016/j.ijfoodmicro.2013.02.022 Jung, 2011, Metagenomic analysis of kimchi, a traditional Korean fermented food, Applied and Environmental Microbiology, 77, 2264, 10.1128/AEM.02157-10 Langille, 2013, Predictive functional profiling of microbial communities using 16S rRNA marker gene sequences, Nature Biotechnology, 31, 1814, 10.1038/nbt.2676 Lee, 2016, Third-generation sequencing and the future of genomics, BioRxiv, 048603 Lee, 2015, Starter cultures for kimchi fermentation, Journal of Microbiology and Biotechnology, 25, 559, 10.4014/jmb.1501.01019 Liu, 2017, Use of Psychrotolerant lactic acid Bacteria (Lactobacillus spp. and Leuconostoc spp.) isolated from Chinese traditional Paocai for the quality improvement of Paocai products, Journal of Agricultural and Food Chemistry, 65, 2580, 10.1021/acs.jafc.7b00050 Martins, 2012, Aluminum and sulphate removal by a highly Al-resistant dissimilatory sulphate-reducing bacteria community, Biodegradation, 23, 693, 10.1007/s10532-012-9545-x Meirmans, 2006, Using the AMOVA framework to estimate a standardized genetic differentiation measure, Evolution, 60, 2399, 10.1111/j.0014-3820.2006.tb01874.x Metzker, 2010, Sequencing technologies|[mdash]| the next generation, Nature Reviews Genetics, 11, 1, 10.1038/nrg2626 Mills, 2008, Characterization of nitrifying, denitrifying, and overall bacterial communities in permeable marine sediments of the northeastern Gulf of Mexico, Applied and Environmental Microbiology, 74, 4440, 10.1128/AEM.02692-07 Moon, 2015, Rapid manufacture and quality evaluation of long-term fermented kimchi (mukeunji) using Lactobacillus sakei SC1, Food Science and Biotechnology, 24, 1797, 10.1007/s10068-015-0234-5 Oguntoyinbo, 2010, Bacterial dynamics during the spontaneous fermentation of cassava dough in gari production, Food Control, 21, 306, 10.1016/j.foodcont.2009.06.010 Parvez, 2006, Probiotics and their fermented food products are beneficial for health, Journal of Applied Microbiology, 100, 1171, 10.1111/j.1365-2672.2006.02963.x Rantalainen, 2006, Statistically integrated metabonomic-proteomic studies on a human prostate cancer xenograft model in mice, Journal of Proteome Research, 5, 2642, 10.1021/pr060124w Segata, 2011, Metagenomic biomarker discovery and explanation, Genome Biology, 12, R60, 10.1186/gb-2011-12-6-r60 Stellato, 2015, Coexistence of lactic acid bacteria and potential spoilage microbiota, Applied and Environmental Microbiology, 81, 7893, 10.1128/AEM.02294-15 Tamang, 2012, Microorganisms and nutritional value of ethnic fermented foods and alcoholic beverages of north East India, Indian Journal of Traditional Knowledge, 11, 7 Trygg, 2002, O2-PLS for qualitative and quantitative analysis in multivariate calibration, Journal of Chemometrics, 16, 283, 10.1002/cem.724 Viander, 2003, Impact of low salt concentration, salt quality on natural large-scale sauerkraut fermentation, Food Microbiology, 20, 391, 10.1016/S0740-0020(02)00150-8 Wang, 2007, Na??ve Bayesian classifier for rapid assignment of rRNA sequences into the new bacterial taxonomy, Applied and Environmental Microbiology, 73, 5261, 10.1128/AEM.00062-07 Wang, 2012, Comparison of the levels of bacterial diversity in freshwater, intertidal wetland, and marine sediments by using millions of illumina tags, Applied and Environmental Microbiology, 78, 8264, 10.1128/AEM.01821-12 Wu, 2015, Changes in flavour and microbial diversity during natural fermentation of suan-cai, a traditional food made in Northeast China, International Journal of Food Microbiology, 211, 23, 10.1016/j.ijfoodmicro.2015.06.028 Xiong, 2012, Geographic distance and pH drive bacterial distribution in alkaline lake sediments across Tibetan Plateau, Environmental Microbiology, 14, 2457, 10.1111/j.1462-2920.2012.02799.x Xiong, 2012, Dynamic changes of lactic acid bacteria flora during Chinese sauerkraut fermentation, Food Control, 26, 178, 10.1016/j.foodcont.2012.01.027 Xiong, 2016, Effects of salt concentration on Chinese sauerkraut fermentation, LWT - Food Science and Technology, 69, 169, 10.1016/j.lwt.2015.12.057 Yan, 2008, Effect of inoculating lactic acid bacteria starter cultures on the nitrite concentration of fermenting Chinese paocai, Food Control, 19, 50, 10.1016/j.foodcont.2007.02.008 Yao, 2015, Evaluation of volatile profile of Sichuan dongcai, a traditional salted vegetable, by SPME-GC-MS and E-nose, LWT - Food Science and Technology, 64, 528, 10.1016/j.lwt.2015.06.063 Zeng, 2009, Identification of lactic acid bacterial strains with high conjugated linoleic acid-producing ability from natural sauerkraut fermentations, Journal of Food Science, 74, 154, 10.1111/j.1750-3841.2009.01123.x Zhao, 2008, Studies on the low-salt Chinese potherb mustard (Brassica juncea, Coss.) pickle. I-the effect of a homofermentative l(+)-lactic acid producer Bacillus coagulans on starter culture in the low-salt Chinese potherb mustard pickle fermentation, LWT - Food Science and Technology, 41, 474, 10.1016/j.lwt.2007.03.023 Zhao, 2007, Analysis of volatile components during potherb mustard (Brassica juncea, Coss.) pickle fermentation using SPME-GC-MS, LWT - Food Science and Technology, 40, 439, 10.1016/j.lwt.2005.12.002 Zhao, 2016, Multiple roles of lactic acid bacteria microflora in the formation of marker flavour compounds in traditional chinese paocai, RSC Advances, 6, 89671, 10.1039/C6RA12474G Zhou, 1996, DNA recovery from soils of diverse composition, Applied and Environmental Microbiology, 62, 316, 10.1128/aem.62.2.316-322.1996