Identification of microorganisms by mass spectrometry:
Saved in:
| Format: | Book |
|---|---|
| Language: | English |
| Published: |
Hoboken, N.J.
Wiley
2006
|
| Series: | Chemical analysis
169 |
| Subjects: | |
| Online Access: | Table of contents Inhaltsverzeichnis |
| Item Description: | Includes bibliographical references and index Includes bibliographical references and index |
| Physical Description: | XVII, 352 S. |
| ISBN: | 0471654426 9780471654421 |
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| adam_text | CONTENTS
Preface xi
Contributors xv
1 Cultural, Serological, and Genetic Methods for
Identification of Bacteria 1
John B. Sutherland and Fatemeh Rafii
1.1 Introduction, 1
1.2 Identification of Bacteria by Cultural Methods, 3
1.3 Identification of Bacteria by Serological Methods, 6
1.4 Identification of Bacteria by Genetic Methods, 8
1.5 Other Methods Used for Bacterial Characterization, 12
1.6 Conclusions, 13
Acknowledgments, 13
References, 13
2 Mass Spectrometry: Identification and Biodetection, Lessons
Learned and Future Developments 23
Alvin Fox
2.1 Introduction, 23
2.2 Analysis of Fatty Acid and Sugar Monomers by GC FID,
GC MS, and GC MS MS, 24
2.3 Analysis of PCR Products by PCR, PCR MS, and
PCR MS MS, 26
v
vi CONTENTS
2.4 Analysis of Proteins by MALDI TOF MS, 31
2.5 Chemical Markers for Protein Based Identification or
Biodetection, 32
2.6 Conclusions, 33
References, 34
3 An Introduction to MALDI TOF MS 39
Rohana Liyanage and Jackson O. Lay, Jr.
3.1 Introduction, 39
3.2 Mass Spectrometry and Time of Flight MS, 40
3.3 Matrix Assisted Laser Desorption Ionization, 47
3.4 MALDI TOF Mass Spectrometry, 51
3.5 MALDI TOF and Bacterial Identification, 51
3.6 Conclusions, 55
References, 56
4 The Development of the Block II Chemical Biological
Mass Spectrometer 61
Wayne H. Griest and Stephen A. Lammert
4.1 Introduction, 61
4.2 Development History and Design Philosophy, 63
4.3 Requirements and Specifications, 73
4.4 Performance Testing, 79
4.5 Conclusions, 86
Acknowledgments, 87
References, 87
5 Method Reprodudbility and Spectral Library Assembly for
Rapid Bacterial Characterization by Metastable Atom
Bombardment Pyrolysis Mass Spectrometry 91
Jon G. Wilkes, Gary Miertschin, Todd Eschler, Les Hosey,
Fatemeh Rafii, Larry Rushing, Dan A. Buzatu, and Michel J. Bertrand
5.1 Introduction, 91
5.2 Sample Preparation for Rapid, Reproducible Cell Culture, 95
5.3 Analytical Instrumentation for Sensitive Detection and
Spectral Reproducibility, 103
5.4 Spectral Library Assembly, 108
5.5 Pattern Recognition Methods for Objectively Classifying
Bacteria, 111
5.6 Conclusions, 120
Acknowledgment, 121
References, 121
CONTENTS vii
6 MALDI TOF Mass Spectrometry of Intact Bacteria 125
Jackson O. Lay, Jr., and Rohana Liyanage
6.1 Introduction, 125
6.2 MALDI MS of Cellular Extracts, 127
6.3 Taxonomy: From Isolates to Whole Cell MALDI, 129
6.4 Whole Cell MALDI MS, 131
6.5 Biology Based Changes in Whole Cell MALDI Spectra, 133
6.6 Analysis of Mixtures, 134
6.7 Experimental Approaches, 136
6.8 Identification of Protein Markers, 141
6.9 Detection of Target Proteins, 142
6.10 Analysis of Clinical Isolates, 143
6.11 Conclusions, 147
References, 147
7 Development of Spectral Pattern Matching Approaches to
Matrix Assisted Laser Desorption/Ionization Time of Flight
Mass Spectrometry for Bacterial Identification 153
Kristin H. Jarman and Karen L. Wahl
7.1 Introduction, 153
7.2 MALDI MS Signature Library Construction and
Identification, 154
7.3 Full Spectrum Pattern Methods, 155
7.4 Peak Table Based Methods, 156
7.5 Future Directions, 158
References, 159
8 Studies of Malaria by Mass Spectrometry 161
Plamen A. Demirev
8.1 Introduction, 161
8.2 Plasmodium in Red Blood Cells, 163
8.3 Experimental Protocols for LDMS Detection of Malaria, 164
8.4 Malaria Detection by Laser Desorption Mass Spectrometry, 167
8.5 MS Based Proteomics of the Plasmodium Parasite, 174
8.6 Conclusions, 175
Acknowledgments, 176
References, 176
9 Bacterial Strain Differentiation by Mass Spectrometry 181
Randy J. Arnold, Jonathan A. Karty, and James P. Reilly
9.1 Introduction, 181
9.2 Analysis of Cellular Proteins by Mass Spectrometry, 182
viii CONTENTS
9.3 Application of MALDI TOF to Bacteria Identification, 183
9.4 Conclusions, 197
Acknowledgment, 197
References, 197
10 Bacterial Protein Biomarker Discovery: A Focused Approach
to Developing Molecular Based Identification Systems 203
Trade L. Williams, Steven R. Monday, and Steven M. Musser
10.1 Introduction, 203
10.2 Protein Extraction Methods, 206
10.3 Protein Chromatography, 206
10.4 Mass Spectrometry, 210
10.5 Automating the Process, 212
10.6 Collecting and Sequencing Proteins, 216
10.7 Conclusions, 222
References, 222
11 High Throughput Microbial Characterizations Using
Electrospray Ionization Mass Spectrometry and Its Role in
Functional Genomics 229
Seetharaman Vaidyanathan and Royston Goodacre
11.1 Introduction, 229
11.2 Microbial Characterizations beyond the Genomic Level:
Functional Genomics, 230
11.3 Electrospray (Ionization) Mass Spectrometry (ESMS), 233
11.4 ESMS of Microbes, 237
11.5 Direct Infusion ESMS of Crude Cell extracts for
High Throughput Characterizations—Metabolic
Fingerprinting and Footprinting, 247
11.6 Conclusions, 249
Acknowledgment, 250
References, 250
12 Bioinfonnatics for Flexibility, Reliability, and Mixture Analysis
of Intact Microorganisms 257
Catherine Fenselau and Patrick Pribil
12.1 Introduction, 257
12.2 Library Matching, 259
12.3 Machine Learning, 259
12.4 Bioinfonnatics, 259
12.5 Protein Molecular Masses, 262
12.6 Peptide Maps, 265
CONTENTS IX
12.7 Microsequences from Peptides and Proteins, 265
12.8 Remaining Challenges, 269
12.9 Conclusions, 270
Acknowledgments, 270
References, 270
13 MALDI FTMS of Whole Cell Bacteria 279
Jeffrey J. Jones, Michael J. Stump, and Charles L. Wilkins
13.1 Introduction, 279
13.2 Fundamentals of MALDI FTMS, 280
13.3 Fundmentals of Complex Biological Analysis, 282
13.4 Whole Cell Characterization through MALDI FTMS, 283
13.5 Recombinant Overexpressed Proteins Desorbed Directly
from Whole Cells, 293
13.6 Conclusions, 295
References, 296
14 A Review of Antibody Capture and Bacteriophage
Amplification in Connection with the Direct Analysis of
WhoIe CeU Bacteria by MALDI TOF MS 301
Kent J. Voorhees and Jon C. Rees
14.1 Introduction, 301
14.2 Bacterial Identification, 303
14.3 Immunocapture of Bacterial Mixtures, 308
14.4 Bacteriophage Amplification of Bacteria, 311
14.5 Conclusions, 315
References, 316
15 Discrimination and Identification of Microorganisms by
Pyrolysis Mass Spectrometry: From Burning Ambitions to
Cooling Embers—A Historical Perspective 319
i.adaoin Timmins and Royston Goodacre
15.1 Introduction to Microbial Characterization, 319
15.2 Principles of PyMS, 323
15.3 Early Developments and Investigations, 1952 to 1985, 325
15.4 The mid 1980s and Beyond, 327
15.5 The Move from Cluster Analyses to Neural Networks, 330
15.6 Reproducibility of PyMS, 332
Acknowledgment, 334
References, 334
Index 345
|
| adam_txt |
CONTENTS
Preface xi
Contributors xv
1 Cultural, Serological, and Genetic Methods for
Identification of Bacteria 1
John B. Sutherland and Fatemeh Rafii
1.1 Introduction, 1
1.2 Identification of Bacteria by Cultural Methods, 3
1.3 Identification of Bacteria by Serological Methods, 6
1.4 Identification of Bacteria by Genetic Methods, 8
1.5 Other Methods Used for Bacterial Characterization, 12
1.6 Conclusions, 13
Acknowledgments, 13
References, 13
2 Mass Spectrometry: Identification and Biodetection, Lessons
Learned and Future Developments 23
Alvin Fox
2.1 Introduction, 23
2.2 Analysis of Fatty Acid and Sugar Monomers by GC FID,
GC MS, and GC MS MS, 24
2.3 Analysis of PCR Products by PCR, PCR MS, and
PCR MS MS, 26
v
vi CONTENTS
2.4 Analysis of Proteins by MALDI TOF MS, 31
2.5 Chemical Markers for Protein Based Identification or
Biodetection, 32
2.6 Conclusions, 33
References, 34
3 An Introduction to MALDI TOF MS 39
Rohana Liyanage and Jackson O. Lay, Jr.
3.1 Introduction, 39
3.2 Mass Spectrometry and Time of Flight MS, 40
3.3 Matrix Assisted Laser Desorption Ionization, 47
3.4 MALDI TOF Mass Spectrometry, 51
3.5 MALDI TOF and Bacterial Identification, 51
3.6 Conclusions, 55
References, 56
4 The Development of the Block II Chemical Biological
Mass Spectrometer 61
Wayne H. Griest and Stephen A. Lammert
4.1 Introduction, 61
4.2 Development History and Design Philosophy, 63
4.3 Requirements and Specifications, 73
4.4 Performance Testing, 79
4.5 Conclusions, 86
Acknowledgments, 87
References, 87
5 Method Reprodudbility and Spectral Library Assembly for
Rapid Bacterial Characterization by Metastable Atom
Bombardment Pyrolysis Mass Spectrometry 91
Jon G. Wilkes, Gary Miertschin, Todd Eschler, Les Hosey,
Fatemeh Rafii, Larry Rushing, Dan A. Buzatu, and Michel J. Bertrand
5.1 Introduction, 91
5.2 Sample Preparation for Rapid, Reproducible Cell Culture, 95
5.3 Analytical Instrumentation for Sensitive Detection and
Spectral Reproducibility, 103
5.4 Spectral Library Assembly, 108
5.5 Pattern Recognition Methods for Objectively Classifying
Bacteria, 111
5.6 Conclusions, 120
Acknowledgment, 121
References, 121
CONTENTS vii
6 MALDI TOF Mass Spectrometry of Intact Bacteria 125
Jackson O. Lay, Jr., and Rohana Liyanage
6.1 Introduction, 125
6.2 MALDI MS of Cellular Extracts, 127
6.3 Taxonomy: From Isolates to Whole Cell MALDI, 129
6.4 Whole Cell MALDI MS, 131
6.5 Biology Based Changes in Whole Cell MALDI Spectra, 133
6.6 Analysis of Mixtures, 134
6.7 Experimental Approaches, 136
6.8 Identification of Protein Markers, 141
6.9 Detection of Target Proteins, 142
6.10 Analysis of Clinical Isolates, 143
6.11 Conclusions, 147
References, 147
7 Development of Spectral Pattern Matching Approaches to
Matrix Assisted Laser Desorption/Ionization Time of Flight
Mass Spectrometry for Bacterial Identification 153
Kristin H. Jarman and Karen L. Wahl
7.1 Introduction, 153
7.2 MALDI MS Signature Library Construction and
Identification, 154
7.3 Full Spectrum Pattern Methods, 155
7.4 Peak Table Based Methods, 156
7.5 Future Directions, 158
References, 159
8 Studies of Malaria by Mass Spectrometry 161
Plamen A. Demirev
8.1 Introduction, 161
8.2 Plasmodium in Red Blood Cells, 163
8.3 Experimental Protocols for LDMS Detection of Malaria, 164
8.4 Malaria Detection by Laser Desorption Mass Spectrometry, 167
8.5 MS Based Proteomics of the Plasmodium Parasite, 174
8.6 Conclusions, 175
Acknowledgments, 176
References, 176
9 Bacterial Strain Differentiation by Mass Spectrometry 181
Randy J. Arnold, Jonathan A. Karty, and James P. Reilly
9.1 Introduction, 181
9.2 Analysis of Cellular Proteins by Mass Spectrometry, 182
viii CONTENTS
9.3 Application of MALDI TOF to Bacteria Identification, 183
9.4 Conclusions, 197
Acknowledgment, 197
References, 197
10 Bacterial Protein Biomarker Discovery: A Focused Approach
to Developing Molecular Based Identification Systems 203
Trade L. Williams, Steven R. Monday, and Steven M. Musser
10.1 Introduction, 203
10.2 Protein Extraction Methods, 206
10.3 Protein Chromatography, 206
10.4 Mass Spectrometry, 210
10.5 Automating the Process, 212
10.6 Collecting and Sequencing Proteins, 216
10.7 Conclusions, 222
References, 222
11 High Throughput Microbial Characterizations Using
Electrospray Ionization Mass Spectrometry and Its Role in
Functional Genomics 229
Seetharaman Vaidyanathan and Royston Goodacre
11.1 Introduction, 229
11.2 Microbial Characterizations beyond the Genomic Level:
Functional Genomics, 230
11.3 Electrospray (Ionization) Mass Spectrometry (ESMS), 233
11.4 ESMS of Microbes, 237
11.5 Direct Infusion ESMS of Crude Cell extracts for
High Throughput Characterizations—Metabolic
Fingerprinting and Footprinting, 247
11.6 Conclusions, 249
Acknowledgment, 250
References, 250
12 Bioinfonnatics for Flexibility, Reliability, and Mixture Analysis
of Intact Microorganisms 257
Catherine Fenselau and Patrick Pribil
12.1 Introduction, 257
12.2 Library Matching, 259
12.3 Machine Learning, 259
12.4 Bioinfonnatics, 259
12.5 Protein Molecular Masses, 262
12.6 Peptide Maps, 265
CONTENTS IX
12.7 Microsequences from Peptides and Proteins, 265
12.8 Remaining Challenges, 269
12.9 Conclusions, 270
Acknowledgments, 270
References, 270
13 MALDI FTMS of Whole Cell Bacteria 279
Jeffrey J. Jones, Michael J. Stump, and Charles L. Wilkins
13.1 Introduction, 279
13.2 Fundamentals of MALDI FTMS, 280
13.3 Fundmentals of Complex Biological Analysis, 282
13.4 Whole Cell Characterization through MALDI FTMS, 283
13.5 Recombinant Overexpressed Proteins Desorbed Directly
from Whole Cells, 293
13.6 Conclusions, 295
References, 296
14 A Review of Antibody Capture and Bacteriophage
Amplification in Connection with the Direct Analysis of
WhoIe CeU Bacteria by MALDI TOF MS 301
Kent J. Voorhees and Jon C. Rees
14.1 Introduction, 301
14.2 Bacterial Identification, 303
14.3 Immunocapture of Bacterial Mixtures, 308
14.4 Bacteriophage Amplification of Bacteria, 311
14.5 Conclusions, 315
References, 316
15 Discrimination and Identification of Microorganisms by
Pyrolysis Mass Spectrometry: From Burning Ambitions to
Cooling Embers—A Historical Perspective 319
i.adaoin Timmins and Royston Goodacre
15.1 Introduction to Microbial Characterization, 319
15.2 Principles of PyMS, 323
15.3 Early Developments and Investigations, 1952 to 1985, 325
15.4 The mid 1980s and Beyond, 327
15.5 The Move from Cluster Analyses to Neural Networks, 330
15.6 Reproducibility of PyMS, 332
Acknowledgment, 334
References, 334
Index 345 |
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| indexdate | 2024-07-09T20:28:31Z |
| institution | BVB |
| isbn | 0471654426 9780471654421 |
| language | English |
| lccn | 2005008550 |
| oai_aleph_id | oai:aleph.bib-bvb.de:BVB01-014280545 |
| oclc_num | 59003348 |
| open_access_boolean | |
| owner | DE-M49 DE-BY-TUM DE-703 DE-83 |
| owner_facet | DE-M49 DE-BY-TUM DE-703 DE-83 |
| physical | XVII, 352 S. |
| publishDate | 2006 |
| publishDateSearch | 2006 |
| publishDateSort | 2006 |
| publisher | Wiley |
| record_format | marc |
| series | Chemical analysis |
| series2 | Chemical analysis |
| spelling | Identification of microorganisms by mass spectrometry edited by Charles L. Wilkins, Jackson O. Lay, Jr Hoboken, N.J. Wiley 2006 XVII, 352 S. txt rdacontent n rdamedia nc rdacarrier Chemical analysis 169 Includes bibliographical references and index Microorganisms Identification Mass spectrometry Bakterien (DE-588)4004296-0 gnd rswk-swf Bestimmung (DE-588)4144949-6 gnd rswk-swf Massenspektrometrie (DE-588)4037882-2 gnd rswk-swf (DE-588)4143413-4 Aufsatzsammlung gnd-content Bakterien (DE-588)4004296-0 s Bestimmung (DE-588)4144949-6 s Massenspektrometrie (DE-588)4037882-2 s DE-604 Wilkins, Charles Lee Sonstige oth Chemical analysis 169 (DE-604)BV000008780 169 http://www.loc.gov/catdir/toc/ecip0510/2005008550.html Table of contents HBZ Datenaustausch application/pdf http://bvbr.bib-bvb.de:8991/F?func=service&doc_library=BVB01&local_base=BVB01&doc_number=014280545&sequence=000010&line_number=0001&func_code=DB_RECORDS&service_type=MEDIA Inhaltsverzeichnis |
| spellingShingle | Identification of microorganisms by mass spectrometry Chemical analysis Microorganisms Identification Mass spectrometry Bakterien (DE-588)4004296-0 gnd Bestimmung (DE-588)4144949-6 gnd Massenspektrometrie (DE-588)4037882-2 gnd |
| subject_GND | (DE-588)4004296-0 (DE-588)4144949-6 (DE-588)4037882-2 (DE-588)4143413-4 |
| title | Identification of microorganisms by mass spectrometry |
| title_auth | Identification of microorganisms by mass spectrometry |
| title_exact_search | Identification of microorganisms by mass spectrometry |
| title_exact_search_txtP | Identification of microorganisms by mass spectrometry |
| title_full | Identification of microorganisms by mass spectrometry edited by Charles L. Wilkins, Jackson O. Lay, Jr |
| title_fullStr | Identification of microorganisms by mass spectrometry edited by Charles L. Wilkins, Jackson O. Lay, Jr |
| title_full_unstemmed | Identification of microorganisms by mass spectrometry edited by Charles L. Wilkins, Jackson O. Lay, Jr |
| title_short | Identification of microorganisms by mass spectrometry |
| title_sort | identification of microorganisms by mass spectrometry |
| topic | Microorganisms Identification Mass spectrometry Bakterien (DE-588)4004296-0 gnd Bestimmung (DE-588)4144949-6 gnd Massenspektrometrie (DE-588)4037882-2 gnd |
| topic_facet | Microorganisms Identification Mass spectrometry Bakterien Bestimmung Massenspektrometrie Aufsatzsammlung |
| url | http://www.loc.gov/catdir/toc/ecip0510/2005008550.html http://bvbr.bib-bvb.de:8991/F?func=service&doc_library=BVB01&local_base=BVB01&doc_number=014280545&sequence=000010&line_number=0001&func_code=DB_RECORDS&service_type=MEDIA |
| volume_link | (DE-604)BV000008780 |
| work_keys_str_mv | AT wilkinscharleslee identificationofmicroorganismsbymassspectrometry |