Shahid Manzoor has over 15 years of experience in bioinformatics. He holds a PhD in Bioinformatics from the Swedish University of Agricultural Sciences and has taught bioinformatics courses there. His research focuses on analyzing next generation sequencing data to study metabolic pathways and discover new correlations in large biological datasets. He has authored or co-authored over 15 publications and is currently a guest researcher at the Swedish University of Agricultural Sciences.

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Curriculum vitae
Qualification:
1. PhD in Bioinformatics (2010-2014) (Swedish University of Agricultural Sciences, Uppsala,
Sweden). (Manzoor, Shahid (2014). Computational and comparative investigations of
syntrophic acetate-oxidising bacteria (SAOB). Diss. (sammanfattning/summary) Uppsala:
Sveriges lantbruksuniv., Acta Universitatis agriculturae Sueciae, 1652-6880 ; 2014:56
ISBN 978-91-576-8060-0 , eISBN 978-91-576-8061-7).
2. MS in Bioinformatics (2009-2010) (Swedish University of Agricultural Sciences, Uppsala,
Sweden) (Thesis title: Bioinformatics assembly annotation and analysis of the Bacillus
amyloliquefaciens strain 5036 genome, Uppsala 2010).
3. M.Sc. in Computer Science (1997-2001) (University of Agriculture Faisalabad, Pakistan)
(CGPA 3.68).
4. B.Sc. (Hons) Agri. in Plant Breeding & Genetics (1997) (University of Agriculture Faisalabad,
Pakistan) (CGPA: 3.38 Marks: 72%).
5. F.Sc. Pre-Premedical (1992) (Bahawalpur Board, Pakistan) (Marks: 70%).
6. Matriculation with Science (1989) Govt. Pilot Secondary High School (Multan Board,
Pakistan) (Marks: 70%).
Supportive Trainings:
1. RNA-Seq advanced data analysis course, NBIC (Netherlands bioinformatics center), October
30 to November 01, 2013, Leiden, Netherland.
2. Annotation and analysis of prokaryotic Genomes using the microscope platform ,
September 12 - 18, 2011, Saclay, France.
3. Next Generation Sequencing, March 1 - 8, 2012, Enafors, Sweden.
4. An Introduction to New Generation Sequencing with Focus on Applications in Genomics and
Metagenomics, March 8 - 10, 2010, Uppsala, Sweden.
5. Applied statistics with R for the agricultural, life and veterinary sciences, August 12 - 18, 2011,
Jelgava, Latvia.
Shahid Manzoor, PhD
Guest Researcher,
Department of Microbiology,
Swedish University of Agricultural Sciences,
750 07 Uppsala.
Mail: shahid.dit.grw@pu.edu.pk
Residence Address:
Väktargatan 40A-111
754 22 Uppsala, Sweden
Mail: shahidpugc@yahoo.com
Mobile: +46 (0) 700 94 77 27

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6. IBM Certification Java Professional, April 3 – 10, 2001, IBM ACE, Islamabad, Paksitan.
7. Oracle Certified Associate (OCA), July 12 – 16, 2006, OraTech Lahore, Pakistan.
8. Oracle Certified Professional (OCP), July 23 – 27, 2006, OraTech Lahore, Pakistan.
9. Oracle Certified Master (OCM), October 4 – 8, 2006, OraTech Lahore, Pakistan.
10. RedHat Linux System Administration, May 9 -15 2006, OraTech Lahore, Pakistan.
11. APPS-DBA (Oracle Financial Administration), November 4 – 9, 2006, OraTech Lahore,
Pakistan.
Areas of special interests in Research:
Broadly my area of research is “to work with Next Generation Sequencing (NGS) data assembly,
annotation and metabolic pathways analysis to study the molecular mechanisms” where the goal is
to discover meaningful new correlations, patterns, and trends by digging into large amounts of
biological data sets. My special areas of interest are as follows:
Ø NGS Data (Assembly, Annotation, Metabolic Pathways Analysis).
Ø Computational Biology.
Ø Comparative Genomics.
Ø R programming.
Ø Transcriptomics/Proteomics.
Ø Biological Databases.
Teaching Profile at graduation and post graduation levels:
Ø Introduction to Bioinformatics.
Ø Database Design & Management.
Ø Database Administration.
Ø Distributed Database Systems.
Ø Object Oriented Programming.
Ø Management Information System.
Ø Introduction to Information Technology.
Research/Teaching & Management Experience:
1. I am working as guest researcher at Department of Microbiology, Swedish University of
Agricultural Sciences, Uppsala, Sweden from April 2015 to to-date.
2. I have taught Bioinformatics course to MS program students for four years (2010 to 2014) as a
part of my PhD studies at Swedish University of Agricultural Sciences, Uppsala Sweden.
3. I have been working as Assistant Professor in the Department of Information Technology,
University of the Punjab, Gujranwala Campus from July 2005 to to-date.
4. I have served as Incharge, Department of Information Technology, University of the Punjab
Gujranwala Campus for three years from 2006 to 2009.

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5. I have served as a Project Coordinator in the Department of Information Technology,
University of the Punjab, Gujranwala Campus for three years and during this period I
supervised more than 15 projects and thesis of the undergraduate and graduate students.
6. I have served as Faculty Member in Punjab University of College of Information Technology,
University of the Punjab, Lahore, Pakistan for two years (2003 to 2005).
Publications:
1. Shahid Manzoor; Erik Bongcam-Rudloff; Anna Schnürer; Bettina Müller, (2016) Genome-
Guided Analysis and Whole Transcriptome Profiling of the Mesophilic Syntrophic Acetate
Oxidising Bacterium Syntrophaceticus schinkii. PLoS ONE 11(11): e0166520.
doi:10.1371/journal.pone.0166520
2. Shahid Manzoor; Bettina Müller ;Erik Bongcam-Rudloff; Anna Schnürer; Complete genome
sequence of the Methanoculleus sp MAB1, the syntrophic partner of acetate oxidizing bacteria
(SAOB). October, 2016; Stand Genomic Sci. DOI: 10.1186/s40793-016-0199-x. eCollection
2016.
3. Shahid Manzoor; Bettina Müller ;Erik Bongcam-Rudloff; Anna Schnürer; Permanent High
Quality draft genome sequence of the Clostridium ultunense strain Esp, a Syntrophic Acetate
Oxidizing bacterium (SAOB). November, 2016; Stand Genomic Sci. (Submitted)
4. Shahid Manzoor; Bettina Müller ;Erik Bongcam-Rudloff; Anna Schnürer; Permanent high
quality draft genome sequence of the Thermicanus aegyptius strain DSM 12793. June, 2016;
Stand Genomic Sci. (Submitted)
5. Niazi A, Asari S, Bejai S, Muqbool K, Manzoor S, Meijer J, et al. (2016) Comparative
genomics of Bacillus amyloliquefaciens species highlights potential determinants of plant
association and interaction. Environmental Microbiology. (Submitted)
6. Shahid Manzoor; Erik Bongcam-Rudloff; Anna Schnürer; Bettina Müller, Comparative
genomics of Syntrophic Acetate Oxidizing bacterium (SAOB), highlights potential acetate
oxidizer. June, 2016; PLoS ONE (To be Submitted).
7. Manzoor S., Müller B., Niazi A., Schnürer A., Bongcam-Rudloff E. Working draft genome
sequence of the mesophilic acetate oxidizing bacterium Syntrophaceticus schinkii strain Sp3.
Stand Genomic Sci. 2015 Nov 11;10:99. doi: 10.1186/s40793-015-0092-z. eCollection 2015.
8. Mushtaq M., Manzoor S., Pringle M., & Rosander A. Draft genome sequence of Treponema
phagedenis strain V1, isolated from bovine digital dermatitis. Stand Genomic Sci. 2015 Sep.,
10:67 doi:10.1186/s40793-015-0059-0.
9. Müller B., Manzoor S., Niazi A., Bongcam-Rudloff E., Schnürer A. Genome-guided analysis
of physiological capacities of Tepidanaerobacter acetatoxydans provides insights into
environmental adaptations and syntrophic acetate oxidation. PLoS One. 2015 Mar
26;10(3):e0121237. doi: 10.1371/journal.pone.0121237. eCollection 2015.
10. Niazi A, Manzoor S, Asari S, Bejai S, Meijer J. (2014) Genome Analysis of Bacillus
amyloliquefaciens Subsp. plantarum UCMB5113: A Rhizobacterium That Improves Plant
Growth and Stress Management. PLoS ONE 9(8): e104651. doi:10.1371/journal.pone.0104651.

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11. Niazi, A., Manzoor, S., Bejai, S., Meijer, J., & Bongcam-Rudloff, E. (2014). Complete genome
sequence of a plant associated bacterium Bacillus amyloliquefaciens strain UCMB5033.
Standards In Genomic Sciences, 9(3). Doi: 10.4056/doisigs.4758653.
12. Manzoor S, Bongcam-Rudloff E, Schnürer A, Müller B. 2013. Tepidanaerobacter
acetatoxydans strain Re1: The first genome sequence of a syntrophic acetate oxidizing bacteria.
Genome Announc. 1:e00213-12.
13. Manzoor S, Müller B, Bongcam-Rudloff E, Schnürer A. 2013. Draft genome sequence of
Clostridium ultunense strain Esp, a Syntrophic Acetate Oxidizing bacterium. Genome
Announc. 1: e00107-13.
14. Manzoor S, Niazi A, Bejai S, Meijer J, Bongcam-Rudloff E. 2013. Genome Sequence of a
Plant-Associated Bacterium, Bacillus amyloliquefaciens Strain UCMB5036 Genome
Announc.1: e00111-13.
15. Johansson AH, Bejai S, Niazi A, Manzoor S, Bongcam-Rudloff E, Meijer J. Studies of plant
colonisation by closely related Bacillus amyloliquefaciens biocontrol agents using strain
specific quantitative PCR assays. Antonie Van Leeuwenhoek. 2014 Dec;106(6):1247-57. doi:
10.1007/s10482-014-0295-0. Epub 2014 Oct 8. PMID:25294724.
16. Conference Proceeding: Ion Torrent Sequencing and pipeline assembly of the first genome
sequence of a mesophilic Syntrophic Acetate Oxidizing Bacterium (SAOB)
Shahid Manzoor, Erik Bongcam Rudloff, Anna Schnürer, Bettina Müller.
17. Conference Proceeding: Genome sequence of plant associated rhizobacterium Bacillus
amyloliquefaciens strain UCMB5033: Adnan Niazi, Shahid Manzoor, Sarosh Bejai, Johan
Meijer, Erik Bongcam-Rudloff.
International Conferences/Workshops attended:
1. Workshop – Analyzing thousands of bacterial genomes: gene annotation, metabolism and
regulation, June 22 - 25, 2014, Marseille, France.
2. Next Generation Sequencing (NGS) methods for identification of mutations and large structural
variants. March 11 – 12, 2014, Lausanne, Switzerland.
3. Workshop – Metagenomic data analysis, June 10 – 12, 2014, SciLifeLab, Stockholm, Sweden.
4. Workshop – RNA-seq / Proteomics August 24 – 26, 2014, SciLifeLab, Uppsala, Sweden.
5. COST Workshop: High Throughput Omics and Data Integration. February 13-15, 2013
a. Barcelona, Spain.
6. SeqAhead Conference "The next NGS Challenge: Data Processing and Integration.
a. May 15-16, 2013,Valencia, Spain.
7. 8th International Symposium on Anaerobic Microbiology (ISAM8), June 12- 15, 2013,
Innsbruck, Austria.
8. Workshop – Phenotype Prediction using Genomic Data, August 19th, 2013, UF Cancer &
Genetics Research Complex, University of Florida, Gainesville, FL. USA.

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9. Bioinformatics test case solution workshop / hackathon, October 7 - 8, 2013, Uppsala, Sweden.
10. CRU metabolism symposium: Metabolism and reproduction in humans an animals” in the
Centre for Reproductive Biology, April 17, 2012 Uppsala, Sweden.
11. Next Generation Sequencing: What's Next? June 01, 2012, Uppsala, Sweden.
12. Bioinformatics Workshop "Evaluation of Test Cases" 12 - 14 December 2012
a. Milan, Italy.
13. Swedish Bioinformatics workshop 2015 “SBW2015” 24-25 September 2015, Stockholm,
Sweden.
Tourism:
I have been to the following cities: Amsterdam (Holland), Barcelona (Spain), Berlin (Germany),
Paris (France), Frankfurt (Germany), Copenhagen (Denmark), Doha (Qatar), Frankfurt
(Germany), Milan (Italy), Istanbul (Turkey), Innsbruck (Austria), Oslo (Norway), Omaha (USA),
Munich (Germany), Leiden (Netherlands), Helsinki (Finland), Jelgava (Latvia), Orlando (USA),
Valencia (Spain), Belgrade (Serbia), Rome (Italy), Umeå (Sweden), Stockholm (Sweden), Prague
(Czech Republic), Trondheim (Norway), Riga (Latvia), Kassel (Germany), Malmo (Sweden),
Hunza Valley (Pakistan), Abu Dhabi (UAE), Zurich (Switzerland), Uppsala (Sweden), Lausanne
(Switzerland), Marseille (France).

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References:
1. Dr. Erik Bongcam-Rudloff
Associate Professor,
Director SLU Global Bioinformatics Centre,
Swedish University of Agriculture Sciences,
750 07 UPPSALA, Sweden.
Email: erik.bongcam@slu.se
Mobile: +46(0)72 535 55 87
Office phone: +46(0)18 67 21 21
2. Dr. Anna Schnürer
Professor,
Department of Microbiology, BioCenter
Swedish University of Agricultural Sciences
Box 7025, 750 07 Uppsala, Sweden
Office Phone: +46 18 67 32 88
Email: anna.schnurer@slu.se
3. Dr. Johan Meijer
Professor,
Inst för växtbiologi och skogsgenetik,
Undervisningsplan 7E, BioCentrum,
750 07 UPPSALA, Sweden.
Email: johan.meijer@slu.se
Office Phone: +46 (0) 18 67 33 21