References
- Akbari H, Shekrabi SPH, Soltani M, Mehrgan MS. Effects of potential probiotic Enterococcus casseliflavus (EC-001) on growth performance, immunity, and resistance to Aeromonas hydrophila infection in common carp (Cyprinus carpio). Probiotics Antimicrob Proteins. 2021 Oct;13(5):1316–1325. https://doi.org/10.1007/s12602-021-09771-x
- Bankevich A, Nurk S, Antipov D, Gurevich AA, Dvorkin M, Kulikov AS, Lesin VM, Nikolenko SI, Pham S, Prjibelski AD, et al. SPAdes: A new genome assembly algorithm and its applications to single-cell sequencing. J Comput Biol. 2012 May;19(5):455–477. https://doi.org/10.1089/cmb.2012.0021
- Blake JD, Cohen FE. Pairwise sequence alignment below the twilight zone. J Mol Biol. 2001 Mar 23;307(2):721–735. https://doi.org/10.1006/jmbi.2001.4495
- Ceddia T, Mancini A, Marinucci MC. [A new ICSB classification of Staphylococci stocks previously classified according to Bergey’s Manual of Determinative Bacteriology] (in Italian). Boll Soc Ital Biol Sper. 1980 Jul 15;56(13):1409–1413.
- Christ JJ, Blank LM. Saccharomyces cerevisiae containing 28% polyphosphate and production of a polyphosphate-rich yeast extract thereof. FEMS Yeast Res. 2019 May 1;19(3):foz011. https://doi.org/10.1093/femsyr/foz011
- Coil D, Jospin G, Darling AE. A5-miseq: an updated pipeline to assemble microbial genomes from Illumina MiSeq data. Bioinformatics. 2015 Feb 15;31(4):587–589. https://doi.org/10.1093/bioinformatics/btu661
- Dobritsa AP, Kutumbaka KK, Werner K, Wiedmann M, Asmus A, Samadpour M. Clostridium tepidum sp. nov., a close relative of Clostridium sporogenes and Clostridium botulinum Group I. Int J Syst Evol Microbiol. 2017 Jul;67(7):2317–2322. https://doi.org/10.1099/ijsem.0.001948
- Gildemyn S, Molitor B, Usack JG, Nguyen M, Rabaey K, Angenent LT. Upgrading syngas fermentation effluent using Clostridium kluyveri in a continuous fermentation. Biotechnol Biofuels. 2017 Mar 29;10:83. https://doi.org/10.1186/s13068-017-0764-6
- Gou WJ, Tian Y, Kong XY, Wu FF, Fang F. [Bacterial composition in pit mud of Yanghe liquor and identification of acid producing bacteria] (in Chinese). Microbiol. China. 2020 Jun:47(6):1651–1661. https://doi.org/10.13344/j.microbiol.china.190839
- Hong J, Tian W, Zhao D. Research progress of trace components in sesame-aroma type of baijiu. Food Res Int. 2020 Nov;137:109695. https://doi.org/10.1016/j.foodres.2020.109695
- Hu XL, Du H, Xu Y. Identification and quantification of the caproic acid-producing bacterium Clostridium kluyveri in the fermentation of pit mud used for Chinese strong-aroma type liquor production. Int J Food Microbiol. 2015 Dec 2;214:116–122. https://doi.org/10.1016/j.ijfoodmicro.2015.07.032
- Ji X, Xu Y, Mu XQ, Ge XY. [Improvement of caproic acid production in the mixed culture of Clostridium kluyveri and Saccharomyces cerevisiae] (in Chinese). J Food Sci Biotechnol. 2017 Sep; 36(09): 922–926.
- Kalvari I, Argasinska J, Quinones-Olvera N, Nawrocki EP, Rivas E, Eddy SR, Bateman A, Finn RD, Petrov AI. Rfam 13.0: shifting to a genome-centric resource for non-coding RNA families. Nucleic Acids Res. 2018 Jan 4;46(D1):D335–D342. https://doi.org/10.1093/nar/gkx1038
- Kim BC, Seung Jeon B, Kim S, Kim H, Um Y, Sang BI. Caproiciproducens galactitolivorans gen. nov., sp. nov., a bacterium capable of producing caproic acid from galactitol, isolated from a wastewater treatment plant. Int J Syst Evol Microbiol. 2015 Dec; 65(Pt_12): 4902–4908. https://doi.org/10.1099/ijsem.0.000665
- Kim H, Jeon BS, Pandey A, Sang BI. New coculture system of Clostridium spp. and Megasphaera hexanoica using submerged hollow-fiber membrane bioreactors for caproic acid production. Bioresour Technol. 2018 Dec;270:498–503. https://doi.org/10.1016/j.biortech.2018.09.033
- Kumar S, Stecher G, Tamura K. MEGA7: Molecular Evolutionary Genetics Analysis Version 7.0 for bigger datasets. Mol Biol Evol. 2016 Jul;33(7):1870–1874. https://doi.org/10.1093/molbev/msw054
- Liu H, Sun B. Effect of fermentation processing on the flavor of baijiu. J Agric Food Chem. 2018 Jun 6;66(22):5425–5432. https://doi.org/10.1021/acs.jafc.8b00692
- Lowe TM, Eddy SR. tRNAscan-SE: A program for improved detection of transfer RNA genes in genomic sequence. Nucleic Acids Res. 1997 Mar 1;25(5):955–964. https://doi.org/10.1093/nar/25.5.955
- Moriya Y, Itoh M, Okuda S, Yoshizawa AC, Kanehisa M. KAAS: an automatic genome annotation and pathway reconstruction server. Nucleic Acids Res. 2007 Jul;35(Suppl_2):W182–W185. https://doi.org/10.1093/nar/gkm321
- Nabi MN, Akhter MS, Zaglul Shahadat MM. Improvement of engine emissions with conventional diesel fuel and diesel-biodiesel blends. Bioresour Technol. 2006 Feb;97(3):372–378. https://doi.org/10.1016/j.biortech.2005.03.013
- Qin X, Galloway-Peña JR, Sillanpaa J, Roh JH, Nallapareddy SR, Chowdhury S, Bourgogne A, Choudhury T, Muzny DM, Buhay CJ, et al. Complete genome sequence of Enterococcus faecium strain TX16 and comparative genomic analysis of Enterococcus faecium genomes. BMC Microbiol. 2012 Jul 7;12:135. https://doi.org/10.1186/1471-2180-12-135
- Serhan M, Mattar J, Debs L. Concentrated yogurt (Labneh) made of a mixture of goats’ and cows’ milk: physicochemical, microbiological and sensory analysis. Small Rumin Res. 2016 May;138:46–52. https://doi.org/10.1016/j.smallrumres.2016.04.003
- Szklarczyk D, Gable AL, Lyon D, Junge A, Wyder S, Huerta-Cepas J, Simonovic M, Doncheva NT, Morris JH, Bork P, et al. STRING v11: protein-protein association networks with increased coverage, supporting functional discovery in genome-wide experimental datasets. Nucleic Acids Res. 2019 Jan 8;47(D1):D607–D613. https://doi.org/10.1093/nar/gky1131
- Tatusova T, DiCuccio M, Badretdin A, Chetvernin V, Nawrocki EP, Zaslavsky L, Lomsadze A, Pruitt KD, Borodovsky M, Ostell J. NCBI prokaryotic genome annotation pipeline. Nucleic Acids Res. 2016 Aug 19;44(14):6614–6624. https://doi.org/10.1093/nar/gkw569
- Thurlow LR, Thomas VC, Fleming SD, Hancock LE. Enterococcus faecalis capsular polysaccharide serotypes C and D and their contributions to host innate immune evasion. Infect Immun. 2009 Dec; 77(12):5551–5557. https://doi.org/10.1128/IAI.00576-09
- Tian N, Guo X, Wang M, Chen C, Cui H, Zhang L, Tang H. Bacterial community diversity of shilixiang baijiu Daqu based on metagenomics. J Food Biochem. 2020 Jul 29:e13410. https://doi.org/10.1111/jfbc.13410
- Van Immerseel F, De Buck J, Boyen F, Bohez L, Pasmans F, Volf J, Sevcik M, Rychlik I, Haesebrouck F, Ducatelle R. Medium-chain fatty acids decrease colonization and invasion through hilA suppression shortly after infection of chickens with Salmonella enterica serovar Enteritidis. Appl Environ Microbiol. 2004 Jun;70(6):3582–3587. https://doi.org/10.1128/AEM.70.6.3582-3587.2004
- Walker BJ, Abeel T, Shea T, Priest M, Abouelliel A, Sakthikumar S, Cuomo CA, Zeng Q, Wortman J, Young SK, et al. Pilon: An integrated tool for comprehensive microbial variant detection and genome assembly improvement. PLoS One. 2014 Nov 19;9(11): e112963. https://doi.org/10.1371/journal.pone.0112963
- Wang MY, Yang JG, Zhao QS, Zhang KZ, Su C. Research progress on flavor compounds and microorganisms of Maotai flavor baijiu. J Food Sci. 2019 Jan;84(1):6–18. https://doi.org/10.1111/1750-3841.14409
- Wang Q, Zhang P, Bao S, Liang J, Wu Y, Chen N, Wang S, Cai Y. Chain elongation performances with anaerobic fermentation liquid from sewage sludge with high total solid as electron acceptor. Bioresour Technol. 2020 Mar 14;306:123188. https://doi.org/10.1016/j.biortech.2020.123188
- Weimer PJ, Stevenson DM. Isolation, characterization, and quantification of Clostridium kluyveri from the bovine rumen. Appl Microbiol Biotechnol. 2012 Apr;94(2):461–466. https://doi.org/10.1007/s00253-011-3751-z
- Yuan S, Jin Z, Ali A, Wang C, Liu J. Caproic acid-producing bacteria in Chinese Baijiu Brewing. Front Microbiol. 2022 May 4; 13:883142. https://doi.org/10.3389/fmicb.2022.883142
- Zhao H, Chang Y, Wang W, Ling HZ, Ping WX, Zhao ZC, Yang ZH. [Isolation and identification of facultative anaerobic strains with high yield of hexanoic acid from Luzhou-flavor liquor pit mud] (in Chinese). Food Sci. 2012 Sep;33(05):177–182.
- Zhao T, Ni D, Hu G, Wang L, Chen S, Xu Y. 6-(2-Formyl-5-methyl-1H-pyrrol-1-yl)hexanoic acid as a novel retronasal burnt aroma compound in soy sauce aroma-type Chinese Baijiu. J Agric Food Chem. 2019 Jul 17;67(28):7916–7925. https://doi.org/10.1021/acs.jafc.9b02095
- Zhong Y, Xie YH. [Method for determination of caproic acid content in caproic acid bacteria culture solution] (in Chinese). Liquor Mak Sci Technol. 2004 Apr;04:91–92.
- Zhu X, Tao Y, Liang C, Li X, Wei N, Zhang W, Zhou Y, Yang Y, Bo T. The synthesis of n‑caproate from lactate: a new efficient process for medium-chain carboxylates production. Sci Rep. 2015 Sep 25; 5:14360. https://doi.org/10.1038/srep14360
- Zischka M, Kuenne C, Blom J, Dabrowski PW, Linke B, Hain T, Nitsche A, Goesmann A, Larsen J, Jensen LB, et al. Complete genome sequence of the porcine isolate Enterococcus faecalis D32. J Bacteriol. 2012 Oct;194(19):5490–5491. https://doi.org/10.1128/JB.01298-12
- Zou W, Zhao C, Luo H. Diversity and function of microbial community in Chinese strong-flavor baijiu ecosystem: A Review. Front Microbiol. 2018 Apr 9;9:671. https://doi.org/10.3389/fmicb.2018.00671