Advances of Real-time PCR Technology in the Field of Gut Microbiota

doi:10.13560/j.cnki.biotech.bull.1985.2014.12.010

Abstract

Abstract: Real-time PCR is one of the most effective methods, which rapidly accurate quantify nucleic acids. Compared with metagenomic, real-time quantitative PCR can quantify microorganism . Real-time PCR, a simple, fast, efficient, specific and high-through put method, is widely used in the field of gut microbiology. The technology in studies of intestinal microbes and disease has a wide range of applications. This paper reviews research progress about real-time PCR in the field of intestinal microbial recent years.

Key words: Real-time PCR, Gut microbiota, Microbiota diversity

Zhao Jie, Ma Chen, Xi Xiaomin, Zhang Heping. Advances of Real-time PCR Technology in the Field of Gut Microbiota[J]. Biotechnology Bulletin, 2014, 0(12): 61-66.

References

[1] Human Microbiome Project Consortium. Structure, function and diversity of the healthy human microbiome[J]. Nature, 2012, 486 (7402)：207-214.
[2] 余章斌, 郭锡熔. 重视肠道微生物组的研究[J]. 临床儿科杂志, 2013(4)：301-305.
[3] Colborn JM, Byrd BD, Koita OA, et al. Estimation of copy number using SYBR Green: confounding by AT-rich DNA and by variation in amplicon length[J]. The American Journal of Tropical Medicine and Hygiene, 2008, 79(6)：887-892.
[4] Jost T, Lacroix C, Braegger CP, et al. New insights in gut microbiota establishment in healthy breast fed neonates[J]. PloS One, 2012, 7(8)：e44595.
[5] Centanni M, Turroni S, Biagi E, et al. A novel combined approach based on HTF-Microbi. Array and qPCR for a reliable characterization of the Bifidobacterium-dominated gut microbiota of breast-fed infants[J]. FEMS Microbiology Letters, 2013, 343(2)：121-126.
[6] Wang T, Cai G, Qiu Y, et al. Structural segregation of gut microbiota between colorectal cancer patients and healthy volunteers[J]. The ISME Journal, 2011, 6(2)：320-329.
[7] Bergstr?m A, Licht TR, Wilcks A, et al. Introducing GUt low-density array(GULDA)：a validated approach for qPCR-based intestinal microbial community analysis[J]. FEMS Microbiology Letters, 2012, 337(1)：38-47.
[8] Wang L, Christophersen CT, Sorich MJ, et al. Low relative abundances of the mucolytic bacterium Akkermansia muciniphila and Bifidobacterium spp. in feces of children with autism[J]. Applied and Environmental Microbiology, 2011, 77(18)：6718-6721.
[9] Ishikawa E, Matsuki T, Kubota H, et al. Ethnic diversity of gut microbiota: species characterization of Bacteroides fragilis group and genus Bifidobacterium in healthy Belgian adults, and comparison with data from Japanese subjects[J]. Journal of Bioscience and Bioengineering, 2013, 116(2)：265-270.
[10] Torok VA, Dyson C, McKay A, et al. Quantitative molecular assays for evaluating changes in broiler gut microbiota linked with diet and performance[J]. Animal Production Science, 2013, 53(12)： 1260.
[11] Matsuki T, Watanabe K, Fujimoto J, et al. Quantitative PCR with 16S rRNA-gene-targeted species-specific primers for analysis of human intestinal bifidobacteria[J]. Appl Environ Microbiol, 2014, 70(1)：167-173.
[12] Agans R, Rigsbee L, Kenche H, et al. Distal gut microbiota of adolescent children is different from that of adults[J]. FEMS Microbiology Ecology, 2011, 77(2)：404-412.
[13] Murray DC, Bunce M, Cannell BL, et al. DNA-based faecal dietary analysis: a comparison of qPCR and high throughput sequencing approaches[J]. PloS One, 2011, 6(10)：e25776.
[14] Garcia AB, Kamara JN, Vigre H, et al. Direct Quantification of Campylobacter jejuni in chicken fecal samples using real-time PCR: evaluation of six rapid DNA extraction methods[J]. Food Analytical Methods, 2013, 6(6)：1728-1738.
[15] Whitlock G, Lewington S, Sherliker P, et al. Body-mass index and cause-specific mortality in 900 000 adults: collaborative analyses of 57 prospective studies[J]. Lancet, 2009, 373: 1083-1096.
[16] Johnston L. Obesity and overweight[J]. South African Pharma-cist’s Assistant, 2011, 12(2)：21-23.
[17] Tilg H, Moschen AR, Kaser A. Obesity and the microbiota[J]. Gastroenterology, 2009, 136: 1476-1483.
[18] Million M, Maraninchi M, Henry M, et al. Obesity-associated gut microbiota is enriched in Lactobacillus reuteri and depleted in Bifidobacterium animalis and Methanobrevibacter smithii[J]. International Journal of Obesity, 2011, 36(6)：817-825.
[19] Everard A, Lazarevic V, Derrien M, et al. Responses of gut microbiota and glucose and lipid metabolism to prebiotics in genetic obese and diet-induced leptin-resistant mice[J]. Diabetes, 2011, 60(11)：2775-2786.
[20] Dostal A, Chassard C, Hilty FM, et al. Iron depletion and repletion with ferrous sulfate or electrolytic iron modifies the composition and metabolic activity of the gut microbiota in rats[J]. The Journal of Nutrition, 2012, 142(2)：271-277.
[21] Dostal A, Fehlbaum S, Chassard C, et al. Low iron availability in continuous in vitro colonic fermentations induces strong dysbiosis of the child gut microbial consortium and a decrease in main metabolites[J]. FEMS Microbiology Ecology, 2013, 83(1)： 161-175.
[22] P?rtty A, Luoto R, Kalliom?ki M, et al. Effects of early prebiotic and probiotic supplementation on development of gut microbiota and fussing and crying in preterm infants: a randomized, double-blind, placebo-controlled trial[J]. The Journal of Pediatrics, 2013, 163 (5)：1272-1277.
[23] Bacchetti De Gregoris T, Aldred N, Clare AS, et al. Improvement of phylum-and class-specific primers for real-time PCR quantification of bacterial taxa[J]. J Microbiol Methods, 2011, 86: 351-356.
[24] Haarman M, Knol J. Quantitative real-time PCR analysis of fecal Lactobacillus species in infants receiving a prebiotic infant formula[J]. Applied and Environmental Microbiology, 2006, 72 (4)：2359-2365.
[25] ?t?epetova J, Sepp E, Kolk H, et al. Diversity and metabolic impact of intestinal Lactobacillus species in healthy adults and the elderly[J]. British Journal of Nutrition, 2011, 105(8)：1235.
[26] Rahn K, De Grandis SA, Clarke RC, et al. Amplification of an invA gene sequence of Salmonella typhimurium by polymerase chain reaction as a specific method of detection of Salmonella[J]. Molecular and Cellular Probes, 1992, 6(4)：271-27.