{"status":"ok","message-type":"work","message-version":"1.0.0","message":{"indexed":{"date-parts":[[2025,3,26]],"date-time":"2025-03-26T06:03:23Z","timestamp":1742969003662,"version":"3.40.3"},"publisher-location":"New York, NY","reference-count":30,"publisher":"Springer New York","isbn-type":[{"type":"print","value":"9781493970353"},{"type":"electronic","value":"9781493970377"}],"license":[{"start":{"date-parts":[[2017,1,1]],"date-time":"2017-01-01T00:00:00Z","timestamp":1483228800000},"content-version":"unspecified","delay-in-days":0,"URL":"http:\/\/www.springer.com\/tdm"}],"content-domain":{"domain":["link.springer.com"],"crossmark-restriction":false},"short-container-title":[],"published-print":{"date-parts":[[2017]]},"DOI":"10.1007\/978-1-4939-7037-7_8","type":"book-chapter","created":{"date-parts":[[2017,6,9]],"date-time":"2017-06-09T09:00:01Z","timestamp":1496998801000},"page":"137-146","update-policy":"https:\/\/doi.org\/10.1007\/springer_crossmark_policy","source":"Crossref","is-referenced-by-count":4,"title":["Detection of Helicobacter pylori in the Gastric Mucosa by Fluorescence In Vivo Hybridization"],"prefix":"10.1007","author":[{"given":"Silvia","family":"Fontenete","sequence":"first","affiliation":[]},{"given":"Marina","family":"Leite","sequence":"additional","affiliation":[]},{"given":"Ceu","family":"Figueiredo","sequence":"additional","affiliation":[]},{"given":"Paul","family":"Cos","sequence":"additional","affiliation":[]},{"given":"Nuno F.","family":"Azevedo","sequence":"additional","affiliation":[]}],"member":"297","published-online":{"date-parts":[[2017,6,10]]},"reference":[{"issue":"4896","key":"8_CR1","doi-asserted-by":"publisher","first-page":"1360","DOI":"10.1126\/science.2466341","volume":"243","author":"EF DeLong","year":"1989","unstructured":"DeLong EF, Wickham GS, Pace NR (1989) Phylogenetic stains: ribosomal RNA-based probes for the identification of single cells. Science 243(4896):1360\u20131363","journal-title":"Science"},{"issue":"9","key":"8_CR2","doi-asserted-by":"publisher","first-page":"3089","DOI":"10.1128\/JCM.00858-07","volume":"45","author":"N Guimaraes","year":"2007","unstructured":"Guimaraes N, Azevedo NF, Figueiredo C, Keevil CW, Vieira MJ (2007) Development and application of a novel peptide nucleic acid probe for the specific detection of Helicobacter pylori in gastric biopsies. J Clin Microbiol 45(9):3089\u20133094","journal-title":"J Clin Microbiol"},{"issue":"3","key":"8_CR3","doi-asserted-by":"publisher","first-page":"302","DOI":"10.1016\/S1369-5274(03)00054-7","volume":"6","author":"M Wagner","year":"2003","unstructured":"Wagner M, Horn M, Daims H (2003) Fluorescence in situ hybridisation for the identification and characterisation of prokaryotes. Curr Opin Microbiol 6(3):302\u2013309","journal-title":"Curr Opin Microbiol"},{"issue":"5","key":"8_CR4","doi-asserted-by":"publisher","first-page":"339","DOI":"10.1038\/nrmicro1888","volume":"6","author":"R Amann","year":"2008","unstructured":"Amann R, Fuchs BM (2008) Single-cell identification in microbial communities by improved fluorescence in situ hybridization techniques. Nat Rev Microbiol 6(5):339\u2013348. doi: 10.1038\/nrmicro1888","journal-title":"Nat Rev Microbiol"},{"issue":"1","key":"8_CR5","doi-asserted-by":"crossref","first-page":"143","DOI":"10.1128\/MMBR.59.1.143-169.1995","volume":"59","author":"RI Amann","year":"1995","unstructured":"Amann RI, Ludwig W, Schleifer KH (1995) Phylogenetic identification and in situ detection of individual microbial cells without cultivation. Microbiol Rev 59(1):143\u2013169","journal-title":"Microbiol Rev"},{"issue":"2","key":"8_CR6","doi-asserted-by":"publisher","first-page":"762","DOI":"10.1128\/jb.172.2.762-770.1990","volume":"172","author":"RI Amann","year":"1990","unstructured":"Amann RI, Krumholz L, Stahl DA (1990) Fluorescent-oligonucleotide probing of whole cells for determinative, phylogenetic, and environmental studies in microbiology. J Bacteriol 172(2):762\u2013770","journal-title":"J Bacteriol"},{"issue":"10","key":"8_CR7","doi-asserted-by":"publisher","first-page":"O760","DOI":"10.1111\/1469-0691.12561","volume":"20","author":"A Makristathis","year":"2014","unstructured":"Makristathis A, Riss S, Hirschl AM (2014) A novel fluorescence in situ hybridization test for rapid pathogen identification in positive blood cultures. Clin Microbiol Infect 20(10):O760\u2013O763. doi: 10.1111\/1469-0691.12561","journal-title":"Clin Microbiol Infect"},{"key":"8_CR8","doi-asserted-by":"publisher","first-page":"2","DOI":"10.1186\/1476-0711-12-2","volume":"12","author":"DM Harris","year":"2013","unstructured":"Harris DM, Hata DJ (2013) Rapid identification of bacteria and Candida using PNA-FISH from blood and peritoneal fluid cultures: a retrospective clinical study. Ann Clin Microbiol Antimicrob 12:2. doi: 10.1186\/1476-0711-12-2 . 1476-0711-12-2 [pii]","journal-title":"Ann Clin Microbiol Antimicrob"},{"issue":"Database issue","key":"8_CR9","doi-asserted-by":"publisher","first-page":"D590","DOI":"10.1093\/nar\/gks1219","volume":"41","author":"C Quast","year":"2013","unstructured":"Quast C, Pruesse E, Yilmaz P, Gerken J, Schweer T, Yarza P, Peplies J, Glockner FO (2013) The SILVA ribosomal RNA gene database project: improved data processing and web-based tools. Nucleic Acids Res 41(Database issue):D590\u2013D596. doi: 10.1093\/nar\/gks1219","journal-title":"Nucleic Acids Res"},{"issue":"Database issue","key":"8_CR10","doi-asserted-by":"publisher","first-page":"D633","DOI":"10.1093\/nar\/gkt1244","volume":"42","author":"JR Cole","year":"2014","unstructured":"Cole JR, Wang Q, Fish JA, Chai B, McGarrell DM, Sun Y, Brown CT, Porras-Alfaro A, Kuske CR, Tiedje JM (2014) Ribosomal Database Project: data and tools for high throughput rRNA analysis. Nucleic Acids Res 42(Database issue):D633\u2013D642. doi: 10.1093\/nar\/gkt1244 . gkt1244 [pii]","journal-title":"Nucleic Acids Res"},{"issue":"11","key":"8_CR11","doi-asserted-by":"publisher","first-page":"1391","DOI":"10.1093\/bioinformatics\/btg168","volume":"19","author":"H Zhang","year":"2003","unstructured":"Zhang H (2003) Alignment of BLAST high-scoring segment pairs based on the longest increasing subsequence algorithm. Bioinformatics 19(11):1391\u20131396","journal-title":"Bioinformatics"},{"issue":"12","key":"8_CR12","doi-asserted-by":"publisher","first-page":"1699","DOI":"10.1177\/002215540305101214","volume":"51","author":"JE Berlier","year":"2003","unstructured":"Berlier JE, Rothe A, Buller G, Bradford J, Gray DR, Filanoski BJ, Telford WG, Yue S, Liu J, Cheung CY, Chang W, Hirsch JD, Beechem JM, Haugland RP, Haugland RP (2003) Quantitative comparison of long-wavelength Alexa Fluor dyes to Cy dyes: fluorescence of the dyes and their bioconjugates. J Histochem Cytochem 51(12):1699\u20131712","journal-title":"J Histochem Cytochem"},{"issue":"9","key":"8_CR13","doi-asserted-by":"publisher","DOI":"10.1371\/journal.pone.0106271","volume":"9","author":"Y Hayashi-Takanaka","year":"2014","unstructured":"Hayashi-Takanaka Y, Stasevich TJ, Kurumizaka H, Nozaki N, Kimura H (2014) Evaluation of chemical fluorescent dyes as a protein conjugation partner for live cell imaging. PLoS One 9(9):e106271. doi: 10.1371\/journal.pone.0106271","journal-title":"PLoS One"},{"key":"8_CR14","first-page":"29","volume":"179","author":"P Hugenholtz","year":"2002","unstructured":"Hugenholtz P, Tyson GW, Blackall LL (2002) Design and evaluation of 16S rRNA-targeted oligonucleotide probes for fluorescence in situ hybridization. Methods Mol Biol 179:29\u201342","journal-title":"Methods Mol Biol"},{"issue":"10","key":"8_CR15","doi-asserted-by":"publisher","first-page":"1944","DOI":"10.3390\/ijms9101944","volume":"9","author":"L Cerqueira","year":"2008","unstructured":"Cerqueira L, Azevedo NF, Almeida C, Jardim T, Keevil CW, Vieira MJ (2008) DNA mimics for the rapid identification of microorganisms by fluorescence in situ hybridization (FISH). Int J Mol Sci 9(10):1944\u20131960. doi: 10.3390\/ijms9101944","journal-title":"Int J Mol Sci"},{"issue":"8","key":"8_CR16","doi-asserted-by":"publisher","first-page":"5311","DOI":"10.1128\/AEM.03039-05","volume":"72","author":"K Kubota","year":"2006","unstructured":"Kubota K, Ohashi A, Imachi H, Harada H (2006) Improved in situ hybridization efficiency with locked-nucleic-acid-incorporated DNA probes. Appl Environ Microbiol 72(8):5311\u20135317. doi: 10.1128\/aem.03039-05","journal-title":"Appl Environ Microbiol"},{"issue":"1","key":"8_CR17","doi-asserted-by":"publisher","first-page":"14","DOI":"10.1128\/AEM.06399-11","volume":"78","author":"KL Robertson","year":"2012","unstructured":"Robertson KL, Vora GJ (2012) Locked nucleic acid and flow cytometry-fluorescence in situ hybridization for the detection of bacterial small noncoding RNAs. Appl Environ Microbiol 78(1):14\u201320. doi: 10.1128\/aem.06399-11","journal-title":"Appl Environ Microbiol"},{"issue":"11","key":"8_CR18","doi-asserted-by":"publisher","DOI":"10.1371\/journal.pone.0081230","volume":"8","author":"S Fontenete","year":"2013","unstructured":"Fontenete S, Guimaraes N, Leite M, Figueiredo C, Wengel J, Filipe Azevedo N (2013) Hybridization-based detection of Helicobacter pylori at human body temperature using advanced locked nucleic acid (LNA) probes. PLoS One 8(11):e81230. doi: 10.1371\/journal.pone.0081230 . PONE-D-13-15277 [pii]","journal-title":"PLoS One"},{"issue":"4","key":"8_CR19","doi-asserted-by":"publisher","first-page":"e0125494","DOI":"10.1371\/journal.pone.0125494","volume":"10","author":"S Fontenete","year":"2015","unstructured":"Fontenete S, Leite M, Guimaraes N, Madureira P, Ferreira RM, Figueiredo C, Wengel J, Azevedo NF (2015) Towards Fluorescence In Vivo Hybridization (FIVH) detection of H. pylori in gastric mucosa using advanced LNA probes. PLoS One 10(4):e0125494. doi: 10.1371\/journal.pone.0125494 . PONE-D-14-54901 [pii]","journal-title":"PLoS One"},{"issue":"2","key":"8_CR20","doi-asserted-by":"publisher","first-page":"e0148353","DOI":"10.1371\/journal.pone.0148353","volume":"11","author":"SLM Fontenete","year":"2016","unstructured":"Fontenete SLM, Cappoen D, Santos R, Ginneken CV, Figueiredo C, Wengel J, Cos P, Azevedo NF (2016) Fluorescence in vivo hybridization (FIVH) for detection of Helicobacter pylori infection in a C57BL\/6 mouse model. PLoS One 11(2):e0148353","journal-title":"PLoS One"},{"key":"8_CR21","doi-asserted-by":"publisher","first-page":"58","DOI":"10.3109\/00365528809099131","volume":"146","author":"BJ Marshall","year":"1988","unstructured":"Marshall BJ (1988) The Campylobacter pylori story. Scand J Gastroenterol Suppl 146:58\u201366","journal-title":"Scand J Gastroenterol Suppl"},{"key":"8_CR22","doi-asserted-by":"publisher","first-page":"2","DOI":"10.3109\/00365529409105352","volume":"201","author":"A Lee","year":"1994","unstructured":"Lee A (1994) The microbiology and epidemiology of Helicobacter pylori infection. Scand J Gastroenterol Suppl 201:2\u20136","journal-title":"Scand J Gastroenterol Suppl"},{"issue":"2","key":"8_CR23","doi-asserted-by":"publisher","DOI":"10.1371\/journal.pone.0148353","volume":"11","author":"S Fontenete","year":"2016","unstructured":"Fontenete S, Leite M, Cappoen D, Santos R, Ginneken CV, Figueiredo C, Wengel J, Cos P, Azevedo NF (2016) Fluorescence In Vivo Hybridization (FIVH) for detection of Helicobacter pylori infection in a C57BL\/6 mouse model. PLoS One 11(2):e0148353. doi: 10.1371\/journal.pone.0148353 . PONE-D-15-52300 [pii]","journal-title":"PLoS One"},{"issue":"16","key":"8_CR24","doi-asserted-by":"publisher","first-page":"2219","DOI":"10.1016\/S0960-894X(98)00366-7","volume":"8","author":"R Kumar","year":"1998","unstructured":"Kumar R, Singh SK, Koshkin AA, Rajwanshi VK, Meldgaard M, Wengel J (1998) The first analogues of LNA (locked nucleic acids): phosphorothioate-LNA and 2\u2032-thio-LNA. Bioorg Med Chem Lett 8(16):2219\u20132222. doi:S0960894X98003667 [pii]","journal-title":"Bioorg Med Chem Lett"},{"issue":"8","key":"8_CR25","doi-asserted-by":"publisher","first-page":"e60","DOI":"10.1093\/nar\/gkl175","volume":"34","author":"Y You","year":"2006","unstructured":"You Y, Moreira BG, Behlke MA, Owczarzy R (2006) Design of LNA probes that improve mismatch discrimination. Nucleic Acids Res 34(8):e60. doi: 10.1093\/nar\/gkl175 . 34\/8\/e60 [pii]","journal-title":"Nucleic Acids Res"},{"issue":"16","key":"8_CR26","doi-asserted-by":"publisher","first-page":"5082","DOI":"10.1093\/nar\/gki789","volume":"33","author":"E Kierzek","year":"2005","unstructured":"Kierzek E, Ciesielska A, Pasternak K, Mathews DH, Turner DH, Kierzek R (2005) The influence of locked nucleic acid residues on the thermodynamic properties of 2\u2032-O-methyl RNA\/RNA heteroduplexes. Nucleic Acids Res 33(16):5082\u20135093. doi: 10.1093\/nar\/gki789 . 33\/16\/5082 [pii]","journal-title":"Nucleic Acids Res"},{"issue":"2","key":"8_CR27","doi-asserted-by":"publisher","first-page":"233","DOI":"10.1007\/s12038-012-9196-4","volume":"37","author":"Y Yan","year":"2012","unstructured":"Yan Y, Yan J, Piao X, Zhang T, Guan Y (2012) Effect of LNA- and OMeN-modified oligonucleotide probes on the stability and discrimination of mismatched base pairs of duplexes. J Biosci 37(2):233\u2013241","journal-title":"J Biosci"},{"issue":"8","key":"8_CR28","doi-asserted-by":"publisher","first-page":"2375","DOI":"10.1039\/C4OB02364A","volume":"13","author":"A Maciaszek","year":"2015","unstructured":"Maciaszek A, Krakowiak A, Janicka M, Tomaszewska-Antczak A, Sobczak M, Mikolajczyk B, Guga P (2015) LNA units present in the (2\u2032-OMe)-RNA strand stabilize parallel duplexes (2\u2032-OMe)-RNA\/[All-RP-PS]-DNA and parallel triplexes (2\u2032-OMe)-RNA\/[All-RP-PS]-DNA\/RNA. An improved tool for the inhibition of reverse transcription. Org Biomol Chem 13(8):2375\u20132384. doi: 10.1039\/c4ob02364a","journal-title":"Org Biomol Chem"},{"issue":"3","key":"8_CR29","doi-asserted-by":"publisher","first-page":"566","DOI":"10.3109\/07388551.2014.993589","volume":"36","author":"S Fontenete","year":"2015","unstructured":"Fontenete S, Guimaraes N, Wengel J, Azevedo NF (2015) Prediction of melting temperatures in fluorescence in situ hybridization (FISH) procedures using thermodynamic models. Crit Rev Biotechnol 36(3):566\u2013577. doi: 10.3109\/07388551.2014.993589","journal-title":"Crit Rev Biotechnol"},{"key":"8_CR30","doi-asserted-by":"publisher","first-page":"57","DOI":"10.1186\/1471-2199-8-57","volume":"8","author":"AM Adams","year":"2007","unstructured":"Adams AM, Harding PL, Iversen PL, Coleman C, Fletcher S, Wilton SD (2007) Antisense oligonucleotide induced exon skipping and the dystrophin gene transcript: cocktails and chemistries. BMC Mol Biol 8:57. doi: 10.1186\/1471-2199-8-57","journal-title":"BMC Mol Biol"}],"container-title":["Methods in Molecular Biology","Diagnostic Bacteriology"],"original-title":[],"language":"en","link":[{"URL":"http:\/\/link.springer.com\/content\/pdf\/10.1007\/978-1-4939-7037-7_8","content-type":"unspecified","content-version":"vor","intended-application":"similarity-checking"}],"deposited":{"date-parts":[[2020,10,9]],"date-time":"2020-10-09T21:55:09Z","timestamp":1602280509000},"score":1,"resource":{"primary":{"URL":"http:\/\/link.springer.com\/10.1007\/978-1-4939-7037-7_8"}},"subtitle":[],"short-title":[],"issued":{"date-parts":[[2017]]},"ISBN":["9781493970353","9781493970377"],"references-count":30,"URL":"https:\/\/doi.org\/10.1007\/978-1-4939-7037-7_8","relation":{},"ISSN":["1064-3745","1940-6029"],"issn-type":[{"type":"print","value":"1064-3745"},{"type":"electronic","value":"1940-6029"}],"subject":[],"published":{"date-parts":[[2017]]},"assertion":[{"value":"10 June 2017","order":1,"name":"first_online","label":"First Online","group":{"name":"ChapterHistory","label":"Chapter History"}}]}}