Publications
2023
VR Marcelino. Gut health: the value of connections. eLife. 2023; 12, e92319.
VR Marcelino, C Welsh, C Diener, EL Gulliver, EL Rutten, RB Young, EM Giles, SM Gibbons, C Greening, SC Forster. Disease-specific loss of microbial cross-feeding interactions in the human gut. Nature Communications 2023; 14, 6546.
VW Salazar, B Shabban, MM Quiroga, R Turnbull, E Tescari, VR Marcelino, H Verbruggen, K-A Lê Cao. Metaphor-A workflow for streamlined assembly and binning of metagenomes. GigaScience. 2023; 12:giad055
SA Marshall, RB Young, JM Lewis, EL Rutten, J Gould, CK Barlow, C Giogha, VR Marcelino, N Fields, RB Schittenhelm, EL Hartland, NE Scott, SC Forster, EL Gulliver. The broccoli-derived antioxidant sulforaphane changes the growth of gastrointestinal microbiota, allowing for the production of anti-inflammatory metabolites. Journal of Functional Foods 2023. 107,105645.
GL D’Adamo, M Chonwerawong, LJ Gearing, VR Marcelino, JA Gould, EL Rutten, SM Solari, PWR Khoo, TJ Wilson, T Thomason, EL Gulliver, PJ Hertzog, EM Giles, SC Forster. Bacterial clade-specific analysis identifies distinct epithelial responses in inflammatory bowel disease. Cell Reports Medicine 2023. 4(7):101124.
VR Marcelino, C Birnbaum. AusME 2022 Melbourne conference. Microbiology Australia 44 (1), 3-4
EL Gulliver, V Adams, VR Marcelino, J Gould, EL Rutten, DR Powell, RB Young, GL D’Adamo, J Hemphill, SM Solari, SA Revitt-Mills, S Munn, T Jirapanjawat, C Greening, JC Boer, KL Flanagan, M Kaldhusdal, M Plebanski, KB Gibney, RJ Moore, JI Rood, SC Forster. Extensive genome analysis identifies novel plasmid families in Clostridium perfringens. Microbial Genomics 2023; 9(4): mgen000995.
2022
SM Solari, RB Young, VR Marcelino, SC Forster. expam—high-resolution analysis of metagenomes using distance trees. Bioinformatics 2022; btac591.
EL Gulliver, RB Young, M Chonwerawong, GL D'Adamo, T Thomason, JT Widdop, EL Rutten, VR Marcelino, RV Bryant, SP Costello, CL O'Brien, GL Hold, EM Giles, SC Forster. The future of microbiome-based therapeutics. Alimentary Pharmacology & Therapeutics 2022; 00: 1-17.
MM Pasella, M-FE Lee, VR Marcelino, A Willis, H Verbruggen. Ten Ostreobium (Ulvophyceae) strains from Great Barrier Reef corals as a resource for algal endolith biology and genomics. Phycologia. 2022; 4:452-458
F Meyer, et al. Critical Assessment of Metagenome Interpretation-the second round of challenges. Nature Methods 2022; 19: 429-440
ACM Teixeira, VR Marcelino, J Alexandrino, CFB Haddad, AA Giaretta. Populational Differentiation in Boana bischoffi (Anura, Hylidae): Revisiting the Issue Using Molecular, Morphological, and Acoustic Data. Journal of Herpetology 2022; 56: 110-119
T Jia, WS Chang, VR Marcelino, S Zhao, X Liu, Y You, EC Holmes, M Shi, C Zhang. Characterization of the gut microbiome and resistomes of wild and zoo-captive macaques. Frontiers in Veterinary Science 2022; 8:778556.
2021
R Young, VR Marcelino, M Chonwerawong, EL Gulliver, SC Forster. Key technologies for progressing discovery of microbiome-based medicines. Frontiers in Microbiology 2021; 12:1604
B Jones-Freeman B, M Chonwerawong, VR Marcelino, AV Deshpande, SC Forster, MR Starkey. The microbiome and host mucosal interactions in urinary tract diseases. Mucosal Immunology 2021; 4:1-4
C Iha, JA Varela, V Avila, CJ Jackson, KA Bogaert, Y Chen, LM Judd, RR Wick, KE Holt, MM Pasella, F Ricci, SI Repetti, M Medina, VR Marcelino, CX Chan, H Verbruggen. Genomic adaptations to an endolithic lifestyle in the coral-associated alga Ostreobium. Current Biology 2021; 31:1393-1402
2020
J Charon, VR Marcelino, R Wetherbee, H Verbruggen, EC Holmes. Meta-transcriptomic detection of diverse and divergent RNA viruses in green and chlorarachniophyte algae. Viruses 2020; 12:1180
VR Marcelino, EC Holmes, TC. Sorrell. The use of taxon-specific reference databases compromises metagenomic classification. BMC Genomics. 2020; 21:184
VR Marcelino, PTLC Clausen, JP Buchmann, M Wille, JR Iredell, W Meyer, O Lund, TC Sorrell, EC Holmes. CCMetagen: comprehensive and accurate identification of eukaryotes and prokaryotes in metagenomic data. Genome Biology 2020; 21:103
A Góes-Neto, VR Marcelino, H Verbruggen, FF da Silva and F Badotti. Fungal diversity of coral skeletons in the southwestern Pacific using 18S rDNA metabarcoding. Coral Reefs 2020; 39,229
2019
F Ricci, VR Marcelino, LL Blackall, M Kühl, M Medina, H Verbruggen. Beneath the surface: community assembly and functions of the coral skeleton microbiome. Microbiome 2019; 7,159
VR Marcelino, L Irinyi, JS Eden, W Meyer, EC Holmes, TC Sorrell. Metatranscriptomics as a tool to identify fungal species and subspecies in mixed communities – a proof of concept under laboratory conditions. IMA Fungus. 2019; 10:8
R Wetherbee, VR Marcelino, JF Costa, B Grant, S Crawford, RF Waller, RA Andersen, D Berry, GI McFadden, H Verbruggen. A new marine prasinophyte genus alternates between a flagellate and a dominant benthic stage with microrhizoids for adhesion. Journal of Phycology 2019; 55:1210-1225
VR Marcelino, M Wille, AC Hurt, D González-Acuña, M Klaassen, JS Eden, M Shi, JR Iredell, TC Sorrell, EC Holmes. Meta-transcriptomics reveals a diverse antibiotic resistance gene pool in avian microbiomes. BMC Biology 2019; 17:31.
2018
C Biswas, VR Marcelino, S Van Hal, C Halliday, E Martinez, Q Wang, S Kidd, K Kennedy, D Marriott, CO Morrissey, I Arthur, K Weeks, MA Slavin, TC Sorrell, V Sintchenko, W Meyer, SC-A Chen. Whole genome sequencing of Australian Candida glabrata isolates reveals genetic diversity and novel sequence types. Frontiers in Microbiology 2018; 9:2946
MC Oliveira, SI Repetti, C Iha, CJ Jackson, P Díaz-Tapia, KM Lubiana, V Cassano, JF Costa, MC Cremen, VR Marcelino, H Verbruggen. High-throughput sequencing for algal systematics. European Journal of Phycology 2018; 53:256-272
CM Cremen, F Leliaert, VR Marcelino, H Verbruggen. Large diversity of nonstandard genes and dynamic evolution of chloroplast genomes in siphonous green algae (Bryopsidales, Chlorophyta). Genome Biology and Evolution 2018; 10:1048-1061
VR Marcelino, MJH van Oppen, H Verbruggen. Highly structured prokaryote communities exist within the skeleton of coral colonies. ISME Journal 2018; 12:300-303.
2017
VR Marcelino, KM Morrow, DG Bourne, MJH van Oppen, H Verbruggen. Diversity and stability of coral endolithic microbial communities at a naturally high pCO2 reef. Molecular Ecology 2017; 26:5344-5357
H Verbruggen, VR Marcelino, MD Guiry, CM Cremen, CJ Jackson. Phylogenetic position of the coral symbiont Ostreobium inferred from chloroplast genome data. Journal of Phycology 2017; 53:790-803
VR Marcelino and H Verbruggen. Reference datasets of tufA and UPA markers to identify algae in metabarcoding surveys. Data in Brief 2017; 11:273-276
2016 and before
VR Marcelino and H Verbruggen. Multi-marker metabarcoding of coral skeletons reveals a rich microbiome and diverse evolutionary origins of endolithic algae. Scientific Reports 2016; 6:31508
VR Marcelino, CM Cremen, CJ Jackson, AWD Larkum, H Verbruggen. Evolutionary dynamics of chloroplast genomes in low light: a case study of the endolithic green alga Ostreobium quekettii. Genome Biology and Evolution 2016; 8:2939-2951
CM Cremen, JM Huisman, VR Marcelino, H Verbruggen. Taxonomic revision of Halimeda (Bryopsidales, Chlorophyta) in southwestern Australia. Australian Systematic Botany 2016; 29:41-54
VR Marcelino and H Verbruggen. Ecological niche models of invasive seaweeds. Journal of Phycology 2015; 51:606-620
H Verbruggen, VR Marcelino, JF Costa. Evolutionary dynamics of algal traits and diversity. Perspectives in Phycology. 2014; 1:53-60
VR Marcelino, CFB Haddad, J Alexandrino. Geographic distribution and morphological variation of striped and nonstriped populations of the Brazilian Atlantic Forest treefrog Hypsiboas bischoffi (Anura: Hylidae). Journal of Herpetology 2009; 43:351-361