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Hire Dr. Alexandra J R.

Mexico

USD 45 /hr

Microbiome Scientist | Bioinformatics Consultant | Founder of Microbialytics |Expert in R, QIIME2 & Statistical Modeling

Profile Summary

I am a microbiome scientist and bioinformatics consultant with a PhD in Biochemistry and Molecular Genetics from the University of New South Wales, Australia (2016). I specialize in the analysis and interpretation of microbiome data, integrating statistical modeling, ecological theory, and computational biology to uncover meaningful biological patterns. Through my company Microbialytics, I provide high-quality bioinformatics and statistical analysis services for microbiome projects across academic and applied research. My expertise covers 16S, ITS, and shotgun metagenomic data processing, diversity and differential abundance analyses, and integration of microbial data with host or clinical metadata. I have extensive experience collaborating on large-scale longitudinal studies, including the Environmental Determinants of Islet Autoimmunity (ENDIA) cohort at the Walter and Eliza Hall Institute (WEHI, Australia), where I investigate temporal microbiome dynamics in women with and without Type 1 Diabetes and their offspring. My approach combines scientific precision with clear communication, helping clients transform complex microbial data into publication-ready results, figures, and biological insights.

Subject Matter Expertise

• ☆ Microbiology
• ☆ Microbiome Research
• ☆ Biostatistics
• ☆ Molecular Biology
• ☆ Genetics
• ☆ Omics
• ☆ Genomics
• ☆ DNA Sequencing
• ☆ Molecular Ecology
• ☆ Data Analysis
• ☆ Data Processing
• ☆ Statistics
• ☆ Multivariate Analysis
• ☆ Study Design
• ☆ Bioinformatics
• ☆ Gene & Protein Expression Analysis
• ☆ Ecology
• ☆ Microbial Ecology
• ☆ Phylogenetics
• ☆ Hypothesis
• ☆ Meta-Research
• ☆ Literature Search
• ☆ Technical & Scientific Writing
• ☆ Manuscript & Journal Article Writing

Services

• Writing
• Research
• Consulting
• Data & AI

Writing Technical Writing

Research Scientific and Technical Research, Systematic Literature Review

Consulting Scientific and Technical Consulting

Data & AI Statistical Analysis, Data Visualization, Data Processing, Data Insights

Work Experience

Scientific collaborator

The Walter and Eliza Hall Institute

January 2024 - Present

Research officer

Walter and Eliza Hall Institute of Medical Research

May 2016 - Present

Postdoctoral Researcher

The Walter and Eliza Hall Institute

February 2016 - December 2023

Education

Ph.D in Biochemistry and Molecular Genetics

University of New South Wales (Sydney, NSW, Australia)

February 2011 - March 2015

Bachelor Degree in Genomic Sciences (Center for Genomic Sciences)

Universidad Nacional Autonoma de Mexico, campus Morelos

August 2005 - August 2009

Bachelor degree in Genomic Sciences

Center for Genomic Sciences. Autonomous University of Mexico (UNAM)

August 2005 - August 2009

Certifications

• Ph.D. (Biochemistry and Molecular Genetics)

  University of New South Wales (Sydney, NSW, Australia)

  March 2015 - Present

• Bachelor degree in Genomic Sciences with cum laude

  Center for Genomic Sciences. Autonomous University of Mexico (UNAM)

  August 2009 - Present

Publications

JOURNAL ARTICLE

Alexandra J. Roth-Schulze, Esther Bandala-Sanchez, Katrina M. Ngui, Gaetano Naselli, Helena Oakey, Patricia Ashwood, Guinevere Martin, James D. Brown, Enrique Zozaya-Valdés, Rebecca L. Thomson, et al. (2025). Adverse pregnancy outcomes in women with type 1 diabetes are associated with multiple alterations in the vaginal microbiome . Diabetologia.

Stefano Mangiola, Alexandra J. Roth-Schulze, Marie Trussart, Enrique Zozaya-Valdés, Mengyao Ma, Zijie Gao, Alan F. Rubin, Terence P. Speed, Heejung Shim, Anthony T. Papenfuss (2023). sccomp: Robust differential composition and variability analysis for single-cell data . Proceedings of the National Academy of Sciences.

Esther Bandala-Sanchez, Alexandra J. Roth-Schulze, Helena Oakey, Megan A.S. Penno, Naiara G. Bediaga, Gaetano Naselli, Katrina M. Ngui, Alannah D. Smith, Dexing Huang, Enrique Zozaya-Valdes, et al. (2022). Women with type 1 diabetes exhibit a progressive increase in gut Saccharomyces cerevisiae in pregnancy associated with evidence of gut inflammation . Diabetes Research and Clinical Practice.

Theo R. Allnutt, Alexandra J. Roth-Schulze, Leonard C. Harrison (2021). Expanding the taxonomic range in the fecal metagenome . BMC Bioinformatics.

Alexandra J. Roth-Schulze, Megan A. S. Penno, Katrina M. Ngui, Helena Oakey, Esther Bandala-Sanchez, Alannah D. Smith, Theo R. Allnutt, Rebecca L. Thomson, Peter J. Vuillermin, Maria E. Craig, et al. (2021). Type 1 diabetes in pregnancy is associated with distinct changes in the composition and function of the gut microbiome . Microbiome.

Katharina Stracke, Poom Adisakwattana, Suparat Phuanukoonnon, Tippayarat Yoonuan, Akkarin Poodeepiyasawat, Paron Dekumyoy, Kittipong Chaisiri, Alexandra Roth Schulze, Stephen Wilcox, Harin Karunajeewa, et al. (2021). Effective low-cost preservation of human stools in field-based studies for helminth and microbiota analysis . International Journal for Parasitology.

Katharina Stracke, Poom Adisakwattana, Suparat Phuanukoonnon, Tippayarat Yoonuan, Akkarin Poodeepiyasawat, Paron Dekumyoy, Kittipong Chaisiri, Alexandra Roth Schulze, Stephen Wilcox, Harin Karunajeewa, et al. (2021). Field evaluation of the gut microbiome composition of pre-school and school-aged children in Tha Song Yang, Thailand, following oral MDA for STH infections . PLOS Neglected Tropical Diseases.

Jessica E. Harbison, Rebecca L. Thomson, John M. Wentworth, Jennie Louise, Alexandra Roth‐Schulze, Rachel J. Battersby, Katrina M. Ngui, Megan A. S. Penno, Peter G. Colman, Maria E. Craig, et al. (2021). Associations between diet, the gut microbiome and short chain fatty acids in youth with islet autoimmunity and type 1 diabetes . Pediatric Diabetes.

Jessica E. Harbison, Alexandra J. Roth‐Schulze, Lynne C. Giles, Cuong D. Tran, Katrina M. Ngui, Megan A. Penno, Rebecca L. Thomson, John M. Wentworth, Peter G. Colman, Maria E. Craig, et al. (2019). Gut microbiome dysbiosis and increased intestinal permeability in children with islet autoimmunity and type 1 diabetes: A prospective cohort study . Pediatric Diabetes.

JESSICA E. HARBISON, ALEXANDRA J. ROTH-SCHULZE, SIMON C. BARRY, CUONG D. TRAN, KATRINA NGUI, MEGAN A. PENNO, JOHN WENTWORTH, PETER G. COLMAN, REBECCA THOMSON, MARIA E. CRAIG, et al. (2018). Gut Microbiome Dysbiosis and Increased Intestinal Permeability in Australian Children with Islet Autoimmunity and Type 1 Diabetes . Diabetes.

Alexandra J. Roth‐Schulze, Jos&#233; Pintado, Enrique Zozaya‐Vald&#233;s, Javier Cremades, Patricia Ruiz, Staffan Kjelleberg, Torsten Thomas (2018). Functional biogeography and host specificity of bacterial communities associated with the Marine Green Alga <i>Ulva</i> spp . Molecular Ecology.

Jocelyn Sietsma Penington, Megan A. S. Penno, Katrina M. Ngui, Nadim J. Ajami, Alexandra J. Roth-Schulze, Stephen A. Wilcox, Esther Bandala-Sanchez, John M. Wentworth, Simon C. Barry, Cheryl Y. Brown, et al. (2018). Influence of fecal collection conditions and 16S rRNA gene sequencing at two centers on human gut microbiota analysis . Scientific Reports.

Alexandra J. Roth‐Schulze, Torsten Thomas, Peter Steinberg, Marty R. Deveney, Jason E. Tanner, Kathryn H. Wiltshire, Stephanie Papantoniou, John W. Runcie, C. Frederico D. Gurgel (2018). The effects of warming and ocean acidification on growth, photosynthesis, and bacterial communities for the marine invasive macroalga <i>Caulerpa taxifolia</i> . Limnology and Oceanography.

Enrique Zozaya‐Vald&#233;s, Alexandra J. Roth‐Schulze, Suhelen Egan, Torsten Thomas (2017). Microbial community function in the bleaching disease of the marine macroalgae <i>Delisea pulchra</i> . Environmental Microbiology.

Alexandra J. Roth‐Schulze, Enrique Zozaya‐Vald&#233;s, Peter D. Steinberg, Torsten Thomas (2016). Partitioning of functional and taxonomic diversity in surface‐associated microbial communities . Environmental Microbiology.

Enrique Zozaya-Vald&#233;s, Alexandra J. Roth-Schulze, Torsten Thomas (2016). Effects of Temperature Stress and Aquarium Conditions on the Red Macroalga Delisea pulchra and its Associated Microbial Community . Frontiers in Microbiology.

M. Rosenblueth, L. Sayavedra, H. S&#225;mano‐S&#225;nchez, A. Roth, E. Mart&#237;nez‐Romero (2012). Evolutionary relationships of flavobacterial and enterobacterial endosymbionts with their scale insect hosts (<scp>H</scp>emiptera: <scp>C</scp>occoidea) . Journal of Evolutionary Biology.

PREPRINT

Leonard Harrison, Theo Allnutt, Sarah Hanieh, Alexandra Roth-Schulze, George Gurruwiwi, Veronica Gondarra, Jennifer Couper, Maria Craig, Elizabeth Davis, Tony Huynh, et al. (2025). Indigenous infants in remote Australia retain an ancestral gut microbiome despite encroaching Westernization .