Publications by Dr J Birch
Zuntini, A.R., Carruthers, T., Maurin, O. et. al. (including J.L. Birch), 2024. Phylogenomics and the rise of the angiosperms. Nature. (doi.org/10.1038/s41586-024-07324-0)
Webb, A.T., R.L. Barrett, J.L. Birch. (2023) Caesia walalbai AT.Webb, Birch & R.L.Barrett (Asphodelaceae subfam. Hemerocallidoideae), a new species from south-east Queensland. Telopea 26: 159-168.
Thompson, K., R. Turnbull, E. Fitzgerald, J.L. Birch. (2023) Identification of herbarium specimen sheet components from high-resolution images using deep learning. Ecology and Evolution 13 (8): e10395.
Thompson, K. and J.L. Birch. 2023. Mapping the Digitisation Workflow in a University Herbarium. Research Ideas and outcomes, 9: e106883.
Gunn, B.F, D.J. Murphy, N.G. Walsh, J.G. Conran, J.C. Pires, M. Crisp, L. Cook, T.D. Macfarlane, and J.L. Birch. 2023. Phylogenomic data resolve phylogenetic relationships of Australian mat-rushes, Lomandra (Asparagaceae: Lomandroideae). Botanical Journal of the Linnean Society (doi.org/10.1093/botlinnean/boad034).
Turnbull, R., J.L. Steenwyk, S.J. Mutch, P. Scholten, V.W. Salazar, J.L. Birch, and H. Verbruggen. Orthoflow: phylogenomic analysis and diagnostics with one command (in prep).
Turnbull, R., E. Fitzgerald, K. Thompson, J.L. Birch. HESPI: A pipeline for automatically detecting information from herbarium specimen sheets. (in prep. HESPI: github.com/rbturnbull/hespi)
Birch, J.L. and A. Kocyan, 2021. Molecular Phylogenetics and Evolution. Biogeography of the monocotyledon astelioid clade (Asparagales): a history of long-distance dispersal and diversification with emerging habitats.
McLay, T.G.B., J.L. Birch, B. Gunn et al., 2021. Applications in Plant Sciences, New targets acquired: Improving locus recovery from the Angiosperms353 probe set, doi: 10.1002/aps3.11420.
Boxshall, A.-G., T. Lebel, J.L. Birch, M. Symonds, D. Callahan, 2021. A field-based investigation of simple phenol variation in Australian Agaricus xanthodermus, Mycologia.
Gunn, B.F, D.J. Murphy, N.G.Walsh, J.G.Conran, J.C.Pires, T.D.Macfarlane, and J.L. Birch. Evolution of Lomandroideae Thorne & Reveal (Asparagaceae Jussieu): Multiple origins of polyploidy and biome occupancy in Australia, Molecular Phylogenetics and Evolution, 149, 106836.
Ranatunga D., P. Milne, Birch, J.L. (2018) Digitise This! Innovation in digitisation initiatives within Australasian herbaria. Biodiversity Information Science and Standards 2, e26077.
Jobson, P., J.L. Birch et al. (2018) Managers of Australasian Herbarium Collections (MAHC): A MARK of curation excellence. Biodiversity Information Science and Standards 2, e26283.
Birch, J.L., N.G. Walsh, D.J. Cantrill, G.D. Holmes, D.J. Murphy (2017). Testing efficacy of distance versus tree-based methods for DNA barcoding of grasses (Poaceae tribe Poeae) in Australia. PLOS One, doi: https://doi.org/10.1371/journal.pone.0186259.
Birch, J.L. (2015) A revision of infrageneric classification in Astelia Banks & Sol. ex R.Br. (Asteliaceae). PhytoKeys 52: 105-132. doi: 10.3897/phytokeys.52.4768.
Birch, J.L., F.B. Berwick (student), N.G. Walsh, D.J. Cantrill, D.J. Murphy (2014[2015]). Distribution of morphological diversity within widespread Australian species of Poa (Poaceae, tribe Poeae) and implications for taxonomy of the genus. (Invited) Australian Systematic Botany ABRS special issue 27: 333-354.
Birch, J.L., D.J. Cantrill, N.G. Walsh, D.J. Murphy. 2014. Phylogenetic investigation and divergence dating of Poa (Poaceae tribe Poeae in the Australasian Region. Botanical Journal of the Linnean Society:175: 523-552.
Birch, J.L., S.C. Keeley (2013). Dispersal pathways across the Pacific: The historical biogeography of Astelia s.l. (Asteliaceae, Asparagales). Journal of Biogeography 40: 1914-1927.
Birch, J.L., S.C. Keeley, and C.W. Morden. 2012. Molecular phylogeny and dating of Asteliaceae (Asparagales): Astelia s.l. evolution provides insight into the Oligocene history of New Zealand. Molecular Phylogenetics and Evolution 65: 102-115.
Birch, J. L. 2011. The systematics and historical biogeography of the Asteliaceae (Asparagales). Doctoral Dissertation, University of Hawaii at Manoa.
Birch, J.L. 2009. A comparative analysis of nineteenth century pharmacopoeias in the Southeastern United States: A case study based on the Gideon Lincecum Herbarium. Economic Botany 63(4):427-440.
Birch, J. L. 2004. The Gideon Lincecum Herbarium: A Floristic and Ethnobotanic Analysis. Master’s Thesis, University of Texas at Austin.
General articles/reports
Birch, J.L. and Simpson, M. 22/06/2022. “The challenge to discover our plant and fungi species”. Pursuit [accessed here].
Holland, D. and Birch, J.L., 24/10/2018. “The stories of Australia’s botanical biodiversity”. Pursuit [accessed here]
Herbarium resources
Project lead on the development of The University of Melbourne Herbarium Collection Online to enable public online access to MELU collections.