Bacterial pangenomics: methods and protocols
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| Other Authors: | |
|---|---|
| Format: | Book |
| Language: | English |
| Published: |
New York, NY [u.a.]
Humana Press
2015
|
| Series: | Methods in molecular biology
1231 |
| Subjects: | |
| Online Access: | Inhaltsverzeichnis |
| Item Description: | Includes bibliographical references and index |
| Physical Description: | X, 298 S. Ill., graph. Darst. 26 cm |
| ISBN: | 9781493917198 |
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Record in the Search Index
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Titel: Bacterial pangenomics
Autor: Mengoni, Alessio
Jahr: 2015
Contents
Preface. v
Contributors. ix
1 Pulsed Field Gel Electrophoresis and Genome Size Estimates. 1
Rosa Alduina and Annalisa Pisciotta
2 Comparative Analyses of Extrachromosomal Bacterial Replicons,
Identification of Chromids, and Experimental Evaluation
of Their Indispensability. 15
Lukasz Dziewit and Dariusz Bartosik
3 Choice of Next-Generation Sequencing Pipelines. 31
F. Del Chierico, M. Ancora, M. Marcacci, C. Cammà, L. Putignani,
and Salvatore Conti
4 The Pyrosequencing Protocol for Bacterial Genomes. 49
Ermanno Rizzi
5 Bacterial Metabarcoding by 16S rKNA Gene Ion
Torrent Amplicon Sequencing. 77
Elio Fantini, Giulio Gianese, Giovanni Giuliano, and Alessia Fiore
6 The Illumina-Solexa Sequencing Protocol for Bacterial Genomes. 91
Zhenfei Hu, Lei Cheng, and Hai Wang
7 High-Throughput Phenomics. 99
Carlo Viti, Francesca Decorosi, Emmanuela Marchi, Marco Galardini,
and Luciana Giovannetti
8 Comparative Analysis of Gene Expression: Uncovering
Expression Conservation and Divergence Between Salmonella
enterica Serovar Typhimurium Strains LT2 and 14028S. 125
Paolo Sonego, Pieter Meysman, Marco Moretto, Roberto Viola,
Kris Laukens, Duccio Cavalieri, and Kristof Engelen
9 Raw Sequence Data and Quality Control. 137
Giovanni Bocci
10 Methods for Assembling Reads and Producing Contigs. 151
Valerio Orlandini, Marco Fondi, and Renato Fani
11 Mapping Contigs Using CONTIGuator. 163
Marco Galardini, Alessio Mengoni, and Marco Bazzicalupo
12 Gene Calling and Bacterial Genome Annotation with BG7. 177
Raquel Tobes, Pablo Pareja-Tobes, Marina Manrique,
Eduardo Pareja-Tobes, Evdokim Kovach, Alexey Alekhin,
and Eduardo Pareja
vii
vili
Contents
13 Defining Orthologs and Pangenome Size Metrics. 191
Emanuele Bosi, Renato Fani, and Marco Fondi
14 Robust Identification of Orthologues and Paralogues
for Microbial Pan-Genomics Using GET_HOMOLOGUES:
A Case Study of plncA/C Plasmids. 203
Pablo Vinuesa and Bruno Contreras-Moreira
15 Genome-Scale Metabolic Network Reconstruction. 233
Marco Fondi and Pietro Lib
16 From Pangenome to Panphenome and Back. 257
Marco Galardini, Alessio Mengoni, and Stefano Mocali
17 Genome-Wide Detection of Selection and Other Evolutionary Forces. 271
Zhuofei Xu and Rui Zhou
18 The Integrated Microbial Genome Resource of Analysis. 289
Alice Checcucci and Alessio Menßoni
Index. 297 |
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| ctrlnum | (OCoLC)900726777 (DE-599)BVBBV042256019 |
| discipline | Biologie |
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| id | DE-604.BV042256019 |
| illustrated | Illustrated |
| indexdate | 2024-11-02T05:00:08Z |
| institution | BVB |
| isbn | 9781493917198 |
| language | English |
| oai_aleph_id | oai:aleph.bib-bvb.de:BVB01-027693920 |
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| physical | X, 298 S. Ill., graph. Darst. 26 cm |
| publishDate | 2015 |
| publishDateSearch | 2015 |
| publishDateSort | 2015 |
| publisher | Humana Press |
| record_format | marc |
| series | Methods in molecular biology |
| series2 | Methods in molecular biology Springer protocols |
| spelling | Bacterial pangenomics methods and protocols ed. by Alessio Mengoni ... Eds. New York, NY [u.a.] Humana Press 2015 X, 298 S. Ill., graph. Darst. 26 cm txt rdacontent n rdamedia nc rdacarrier Methods in molecular biology 1231 Springer protocols Includes bibliographical references and index Bacterial genetics Bacterial genomes Bacteriology Mengoni, Alessio (DE-588)1065466625 edt Methods in molecular biology 1231 (DE-604)BV035362695 1231 HBZ Datenaustausch application/pdf http://bvbr.bib-bvb.de:8991/F?func=service&doc_library=BVB01&local_base=BVB01&doc_number=027693920&sequence=000002&line_number=0001&func_code=DB_RECORDS&service_type=MEDIA Inhaltsverzeichnis |
| spellingShingle | Bacterial pangenomics methods and protocols Methods in molecular biology Bacterial genetics Bacterial genomes Bacteriology |
| title | Bacterial pangenomics methods and protocols |
| title_auth | Bacterial pangenomics methods and protocols |
| title_exact_search | Bacterial pangenomics methods and protocols |
| title_full | Bacterial pangenomics methods and protocols ed. by Alessio Mengoni ... Eds. |
| title_fullStr | Bacterial pangenomics methods and protocols ed. by Alessio Mengoni ... Eds. |
| title_full_unstemmed | Bacterial pangenomics methods and protocols ed. by Alessio Mengoni ... Eds. |
| title_short | Bacterial pangenomics |
| title_sort | bacterial pangenomics methods and protocols |
| title_sub | methods and protocols |
| topic | Bacterial genetics Bacterial genomes Bacteriology |
| topic_facet | Bacterial genetics Bacterial genomes Bacteriology |
| url | http://bvbr.bib-bvb.de:8991/F?func=service&doc_library=BVB01&local_base=BVB01&doc_number=027693920&sequence=000002&line_number=0001&func_code=DB_RECORDS&service_type=MEDIA |
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