Advanced Techniques in Diagnostic Microbiology

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Contents xv 22 Review of Molecular Techniques for Sexually Transmitted Diseases Diagnosis............................................................... 353 Angus C.T. Lo and Kai Man Kam 23 Advances in the Diagnosis of Mycobacterium tuberculosis and Detection of Drug Resistance .................................................. 387 Abdullah Kilic and Wonder Drake 24 Rapid Screening and Identification of Methicillin-Resistant Staphylococcus aureus .......................................................... 411 Patrice Francois and Jacques Schrenzel 25 Bead-Based Flow Cytometric Assays: A Multiplex Assay Platform with Applications in Diagnostic Microbiology ............................. 427 David Ernst, George Bolton, Diether Recktenwald, Mark J. Cameron, Ali Danesh, Desmond Persad, David J. Kelvin, and Amitabh Gaur 26 Molecular Strain Typing Using Repetitive Sequence–Based PCR...... 444 Stacie R. Frye and Mimi Healy 27 Molecular Differential Diagnoses of Infectious Diseases: Is the Future Now?....................................................................... 472 Jian Han 28 Pathogen Detection in the Genomic Era ..................................... 505 Elizabeth M. Marlowe and Donna M. Wolk Index 525
Page 2: Advanced Techniques in Diagnostic M
Page 6: Yi-Wei Tang Molecular Infectious Di
Page 10: vi Contributors Wonder Drake Depart
Page 14: viii Contributors Jacques Schrenzel
Page 18: Preface Clinical microbiologists ar
Page 22: Contents Part I Techniques 1 Automa
Page 28: Part I Techniques
Page 32: 4 X.Y.Han and microbial factors det
Page 36: 6 X.Y.Han TABLE 1.1. Commercial con
Page 40: 8 X.Y.Han However, the two CMBCSs d
Page 44: 10 X. Y. Han Reimer, L. G., Wilson,
Page 48: 12 S. Wang and X. Zheng therapy wit
Page 52: 14 S. Wang and X. Zheng of H. pylor
Page 56: 16 S. Wang and X. Zheng A further m
Page 60: 18 S. Wang and X. Zheng tubes for G
Page 64: 20 S. Wang and X. Zheng Graham, D.
Page 68: 22 S. Wang and X. Zheng two test me
Page 72: 24 S. Campbell and M. L. Landry Pri
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26 S. Campbell and M. L. Landry opp
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28 S. Campbell and M. L. Landry dir
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TABLE 3.1. Characteristics of the t
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TABLE 3.2. Application of technique
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TABLE 3.2 (Continued) Pathogen Meth
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TABLE 3.2 (Continued) Pathogen Meth
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38 S. Campbell and M. L. Landry Rap
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40 S. Campbell and M. L. Landry Ger
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4 Advanced Antibody Detection YUN F
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44 Y. F. Wang grouped into several
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46 Y. F. Wang variety of substrates
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48 Y. F. Wang One reason accounting
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50 Y. F. Wang by a carbodiimide con
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52 Y. F. Wang TABLE 4.2. Type of co
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54 Y. F. Wang small-volume samples
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56 Y. F. Wang Multiplexed Bead Assa
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58 Y. F. Wang the reliability of th
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60 Y. F. Wang Hemmila, I., Dakubu,
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62 Y. F. Wang (2002). Specific, sen
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64 C. Qi, C. W. Stratton, and X. Zh
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6 Biochemical Profile-Based Microbi
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86 J. Aslanzadeh + beta hemolytic +
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88 J. Aslanzadeh Gram Negative Cocc
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90 J. Aslanzadeh Preliminary Identi
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92 J. Aslanzadeh tryptophane result
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94 J. Aslanzadeh β-naphthylamine p
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96 J. Aslanzadeh Reading the test b
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98 J. Aslanzadeh TABLE 6.1. Commonl
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100 J. Aslanzadeh Do not incubate t
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102 J. Aslanzadeh Using a sterile i
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104 J. Aslanzadeh Voges-Proskaure (
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106 J. Aslanzadeh The strip is exam
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108 J. Aslanzadeh ferrous sulfate i
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110 J. Aslanzadeh TABLE 6.2. Commer
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112 J. Aslanzadeh substrates. It is
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114 J. Aslanzadeh The reagents will
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116 J. Aslanzadeh Killian, M. (1974
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118 D. Dare Furthermore, the amount
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120 D. Dare be required. Currently,
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122 D. Dare TABLE 7.1. Comparison o
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124 D. Dare Search results Combined
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126 D. Dare (a) No. genera 4123 No.
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128 D. Dare that similarity of the
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130 D. Dare Dare, D., Sutton, H., K
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132 D. Dare McKenna, T., Lunt, M.,
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8 Probe-Based Microbial Detection a
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136 T. Hong Hybridization and Detec
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138 T. Hong Candida species can det
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140 T. Hong and 100%, respectively.
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142 T. Hong Wagner, M., Schmid, M.,
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144 F. Wu and P. Della-Latta migrat
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146 F. Wu and P. Della-Latta TABLE
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148 F. Wu and P. Della-Latta DNA d
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150 F. Wu and P. Della-Latta TABLE
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152 F. Wu and P. Della-Latta λ 1 2
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154 F. Wu and P. Della-Latta Summar
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156 F. Wu and P. Della-Latta pneumo
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10 In Vitro Nucleic Acid Amplificat
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160 H. Li and Y-W. Tang of these me
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162 H. Li and Y-W. Tang Currently,
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164 H. Li and Y-W. Tang La Rocco, M
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11 PCR and Its Variations MICHAEL L
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168 M. Loeffelholz and H. Deng to o
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170 M. Loeffelholz and H. Deng FIGU
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172 M. Loeffelholz and H. Deng be i
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174 M. Loeffelholz and H. Deng the
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176 M. Loeffelholz and H. Deng RT-P
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178 M. Loeffelholz and H. Deng Dete
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180 M. Loeffelholz and H. Deng buff
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182 M. Loeffelholz and H. Deng Grat
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12 Non-Polymerase Chain Reaction Me
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186 M.L. Pendrak and S.S. Yan TMA (
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188 M.L. Pendrak and S.S. Yan dsDNA
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190 M.L. Pendrak and S.S. Yan (van
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192 M.L. Pendrak and S.S. Yan ampli
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194 M.L. Pendrak and S.S. Yan FIGUR
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196 M.L. Pendrak and S.S. Yan RCA m
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202 M.L. Pendrak and S.S. Yan TABLE
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204 M.L. Pendrak and S.S. Yan of hu
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206 M.L. Pendrak and S.S. Yan Kwoh,
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208 M.L. Pendrak and S.S. Yan Smirn
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13 Recent Advances in Probe Amplifi
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212 D. Zhang et al. TABLE 13.1. Com
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214 D. Zhang et al. scanner after h
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216 D. Zhang et al. FIGURE 13.3. Sc
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218 D. Zhang et al. FIGURE 13.4. Sc
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220 D. Zhang et al. A. B. Invasive
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222 D. Zhang et al. FIGURE 13.6. Pr
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224 D. Zhang et al. The mecA probe
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226 D. Zhang et al. Landegren, U.,
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14 Signal Amplification Techniques:
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230 Y. F. Wang Virus (3)* (2) (4)*
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232 Y. F. Wang 1. Denaturation 2. H
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234 Y. F. Wang Application of the T
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236 Y. F. Wang specimen. A study (K
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238 Y. F. Wang amplification techno
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240 Y. F. Wang Cuzick, J., Szarewsk
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242 Y. F. Wang Qian, X., & Lloyd, R
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244 R. P. Podzorski, M. Loeffelholz
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16 Direct Nucleotide Sequencing for
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266 Tao Hong approximately 10 min (
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268 Tao Hong frequently caused prob
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270 Tao Hong for the use of the 16S
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272 Tao Hong of MRSA. The coagulase
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274 Tao Hong Gürtler, V., & Barrie
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17 Microarray-Based Microbial Ident
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278 T.J. Gentry and J. Zhou These a
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280 T.J. Gentry and J. Zhou the des
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282 T.J. Gentry and J. Zhou Communi
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284 T.J. Gentry and J. Zhou PCR-bas
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286 T.J. Gentry and J. Zhou Althoug
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288 T.J. Gentry and J. Zhou Korczak
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290 T.J. Gentry and J. Zhou Willse,
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292 X. Qin allow real-time monitori
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294 X. Qin which the observed fluor
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296 X. Qin that there would be no G
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298 X. Qin 2005). Furthermore, the
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300 X. Qin Cattoli, G., Drago, A.,
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302 X. Qin Kostrikis, L.G., Touloum
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304 X. Qin Ririe, K.M., Rasmussen,
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19 Amplification Product Inactivati
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308 S. Sefers and Y-W. Tang Most de
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310 S. Sefers and Y-W. Tang UNG Pro
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312 S. Sefers and Y-W. Tang 4' Psor
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314 S. Sefers and Y-W. Tang Isopsor
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316 S. Sefers and Y-W. Tang used is
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318 S. Sefers and Y-W. Tang Conclus
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Part II Applications
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324 X.Y. Han TABLE 20.1. The number
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326 X.Y. Han Homology Search and Re
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328 X.Y. Han TABLE 20.2. Examples o
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330 X.Y. Han Conclusion In summary,
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332 X.Y. Han Shimizu, T., Ohtani, K
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TABLE 21.1. Licensed / Approved Cli
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TABLE 21.1. (Continued) Tradename(s
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TABLE 21.1. (Continued) Tradename(s
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340 Y. Hu and I. Hirshfield gel ele
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342 Y. Hu and I. Hirshfield Since 1
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344 Y. Hu and I. Hirshfield they ar
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346 Y. Hu and I. Hirshfield Antibod
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348 Y. Hu and I. Hirshfield all ove
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350 Y. Hu and I. Hirshfield chances
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352 Y. Hu and I. Hirshfield Tang, Y
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354 A. C. T. Lo and K. M. Kam in tu
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356 A. C. T. Lo and K. M. Kam is no
Page 736:
358 A. C. T. Lo and K. M. Kam stabl
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360 A. C. T. Lo and K. M. Kam Stran
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362 A. C. T. Lo and K. M. Kam organ
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364 A. C. T. Lo and K. M. Kam probe
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366 A. C. T. Lo and K. M. Kam major
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368 A. C. T. Lo and K. M. Kam Molec
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370 A. C. T. Lo and K. M. Kam a sec
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372 A. C. T. Lo and K. M. Kam cervi
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374 A. C. T. Lo and K. M. Kam E6 an
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376 A. C. T. Lo and K. M. Kam M. (2
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378 A. C. T. Lo and K. M. Kam Hippe
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380 A. C. T. Lo and K. M. Kam Larse
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382 A. C. T. Lo and K. M. Kam Nobbe
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384 A. C. T. Lo and K. M. Kam chlam
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386 A. C. T. Lo and K. M. Kam ureal
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388 A. Kilic and W. Drake Lipids wi
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390 A. Kilic and W. Drake America,
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392 A. Kilic and W. Drake MTB from
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394 A. Kilic and W. Drake with anti
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396 A. Kilic and W. Drake Molecular
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398 A. Kilic and W. Drake and monit
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400 A. Kilic and W. Drake system; t
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402 A. Kilic and W. Drake transillu
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404 A. Kilic and W. Drake Real-Time
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406 A. Kilic and W. Drake Caws, M.,
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408 A. Kilic and W. Drake Marttila,
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410 A. Kilic and W. Drake Torres, M
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412 P. Francois and J. Schrenzel an
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414 P. Francois and J. Schrenzel th
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416 P. Francois and J. Schrenzel A
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418 P. Francois and J. Schrenzel St
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420 P. Francois and J. Schrenzel Ac
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422 P. Francois and J. Schrenzel or
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424 P. Francois and J. Schrenzel Lo
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426 P. Francois and J. Schrenzel Va
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428 D. Ernst et al. several microme
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430 D. Ernst et al. reanalysis to d
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432 D. Ernst et al. Neisseria menin
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434 D. Ernst et al. A. B. SEB-beads
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436 D. Ernst et al. IL-6, IL-8, and
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pg/ml 120 100 80 60 40 20 0 120 100
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440 D. Ernst et al. Although interf
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442 D. Ernst et al. Lal, G., Balmer
Page 908:
26 Molecular Strain Typing Using Re
Page 912:
446 S. R. Frye and M. Healy FIGURE
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448 S. R. Frye and M. Healy Automat
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450 S. R. Frye and M. Healy TABLE 2
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452 S. R. Frye and M. Healy Noncomm
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454 S. R. Frye and M. Healy 2001).
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456 S. R. Frye and M. Healy (Stempe
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458 S. R. Frye and M. Healy isolate
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460 S. R. Frye and M. Healy molecul
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462 S. R. Frye and M. Healy Boerlin
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464 S. R. Frye and M. Healy Fey, P.
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466 S. R. Frye and M. Healy Kwara,
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468 S. R. Frye and M. Healy Pfaller
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470 S. R. Frye and M. Healy Tang, Y
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27 Molecular Differential Diagnoses
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474 J. Han The technology advanceme
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476 J. Han Targets Optimal Conditio
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478 J. Han TABLE 27.1. Comparison o
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480 J. Han TABLE 27.3. Comparison o
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482 J. Han suspension hybridization
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484 J. Han fluorescent dye is remov
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486 J. Han TABLE 27.5. List of path
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TABLE 27.8. Detection results of th
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490 J. Han common in HAI. In additi
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492 J. Han TABLE 27.12. Detection r
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494 J. Han TABLE 27.14. List of pat
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496 J. Han TABLE 27.18. Detectable
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TABLE 27.20. List of gene targets i
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500 J. Han Benefits and Impact: Del
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502 J. Han significantly increasing
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504 J. Han Hindiyeh, M., Hillyard D
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506 E. M. Marlowe and D. M. Wolk Al
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TABLE 28.1. Automated specimen proc
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510 E. M. Marlowe and D. M. Wolk Au
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512 E. M. Marlowe and D. M. Wolk La
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514 E. M. Marlowe and D. M. Wolk me
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516 E. M. Marlowe and D. M. Wolk mo
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518 E. M. Marlowe and D. M. Wolk Mo
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520 E. M. Marlowe and D. M. Wolk Ha
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522 E. M. Marlowe and D. M. Wolk Sa
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Index A acetate utilization, 100 Ac
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Index 527 rapid antigen tests, 27-2
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Index 529 flow cytometric immunoass
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Index 531 Human T-Lymphotropic Viru
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Index 533 MLEE. See multilocus enzy
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Index 535 PNA. See peptide-nucleic
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Index 537 Roseomonas, 328-329 rotav
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Index 539 T TaqMan probes, 293-296
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