Profiles

Barbara Holland

UTAS Home Assoc. Prof Barbara Holland

Barbara Holland

Head of Discipline - Mathematics

Room 460, Maths-Physics Building, Sandy Bay Campus

+61 3 6226 1990 (phone)

+61 3 6226 2410 (fax)

Barbara.Holland@utas.edu.au

Barbara Holland is an Associate Professor in the discipline of Mathematics within the School of Physical Sciences at the University of Tasmania, Australia. She works within the Theoretical Phylogenetics research group and lectures mostly in Statistics.

Barbara applies mathematics and statistics to problems in evolutionary biology or population genetics. In particular, her research has focused on problems in phylogenetics. She is interested in developing tools that can assess if sequence data is well explained by a simple tree model or if more complex processes such as hybridisation, recombination or convergent selection are at work. The areas of mathematics/statistics that she uses frequently include stochastic models, continuous time Markov chains, combinatorial optimization, maximum likelihood, and simulation.

Career summary

Qualifications

DegreeThesis TitleUniversity Country Date of Award
PhDEvolutionary analyses of large data sets: Trees and beyondMassey UniversityNew Zealand11/2/2002
BInfSc (1st Class Hons) Massey UniversityNew Zealand31/12/1997
BSc Massey UniversityNew Zealand 31/12/1996

Biography

Barbara completed a PhD in Mathematical Biology at Massey University in New Zealand followed by postdoctoral studies at the Ruhr Universit├Ąt Bochum (Germany) and in the Allan Wilson Centre for Molecular Ecology and Evolution (New Zealand). Prior to joining the University of Tasmania she worked as a Mathematics lecturer and researcher at Massey University.

Since beginning her PhD she has enjoyed the challenge of working with biologists in trying to translate the problems they face into the language of mathematics. Biology is awash with data since the advent of DNA sequencing technology and this has opened up a range of very interesting research questions that require a combination of skills from mathematics, biology and computer science.

Research Themes

Barbara's research aligns primarily to the University's research theme of Data, Knowledge and Decisions. Her main interests are in mathematical phylogenetics, which deals with the estimation of evolutionary trees (family trees for species). Molecular phylogenetics uses patterns in DNA sequence data to make inferences about how different species are related to each other and to uncover information about the processes of evolution.  

Statistical modelling of sequence data has many applications within the theme areas of Better Health where, in collaboration with colleagues in Microbiology and Epidemiology from Massey University, Barbara has analysed data for human pathogens such as Campylobacter jejuni and Candida albicans. Her work also has links to the theme of Environment, Resources and Sustainability where she has worked with colleagues in the School of Biological Sciences analysing genetic data from Eucalyptus species to better understand the emergence of species boundaries – this has practical implication for the management of forestry plantations.

Memberships

Professional practice

  • Society of Systematic Biologists
  • Society for Molecular Biology and Evolution

Administrative expertise

Barbara is currently head of Discipline for Mathematics. She co-organises Phylomania, an annual meeting on Theoretical Phylogenetics. She is on the organising committee for the 2016 meeting of the Society of Molecular Biology and Evolution (http://www.smbe2016.org).

Teaching

Statistics, Operations Research, Phylogenetics

Teaching responsibility

Mathematics discipline

Service teaching

Breadth teaching

Research Appointments

  • 2013: Elected to council of Society of Systematic Biologists

Research Invitations

  • Invited Speaker, BioInfoSummner (Adelaide, December, 2014) 'Introduction to Phylogenetic Methods'
  • Invited speaker and workshop leader, NSF/ CBMS conference Mathematical Phylogeny (Rockhill SC, June, 2014) 'Testing phylogenetic models – how bad and bad how? Residual diagnostics for phylogenetics'
  • Symposium speaker, Society for Molecular Biology and Evolution (San Juan, Puerto Rico, June, 2014) 'Markov models of convergent evolution'
  • Invited Speaker, BioInfoSummner (Adelaide, December, 2013) 'Introduction to Phylogenetic Methods'
  • Invited participant at Cass Workshop on Networks of Life. Cass, New Zealand. 'Modelling convergence' (Feb 2013)
  • Invited speaker at Massey University, New Zealand (joint talk to the Institute of Fundamental Sciences and Institute of Veterinary, Animal, and Biomedical Sciences) entitled 'A tour of recent work by the Phylomanians'
  • Invited speaker at the School of Mathematics, University of Adelaide, Australia. Current statistical challenges for molecular phylogenetics (May, 2011)
  • Keynote speaker at the Isaac Newton Institute for Mathematical Sciences, Cambridge, UK. Workshop on Phylogenetics: New data new challenges. Phylogenies from DArTs: A stochastic Dollo process with censored data (June, 2011)

View more on AssocProf Barbara Holland in WARP

Expertise

  • Phylogenetics
  • Mathematical biology
  • Population genetics
  • Epidemiology
  • Biostatistics
  • Evolutionary Biology
  • Applied Mathematics

Awards

  • 2010: ARC funded Future Fellowship
  • 2008: New Zealand Mathematics Society Early Career Award
  • 2005: Royal Society of New Zealand, Hamilton Award

Collaboration

Barbara maintains collaborations with several researchers at Massey University in New Zealand working on both phylogenetic problems (Professor Peter Lockhart) and molecular epidemiology (Professor Nigel French). Within Australia she also works with researchers at Griffith University (Professor David Lambert) and Adelaide University (Professor Nigel Bean).

The Theoretical Phylogenetics group has recently hosted visits from Dr Amelia Taylor (Colarado, US) and Prof David Liberles (Philadelphia, US). At the University of Tasmania Barbara also enjoys getting across Churchill Road to work with colleagues in the School of Biological Sciences.

Current projects

  • Algebraically informed models of biological sequence evolution (joint with Dr Jeremy Sumer, Dr Peter Jarvis, Prof David Liberles (USA))
  • Uncovering biases in ancestral state reconstruction (joint with A/Prof Greg Jordan)
  • Better models of microsatellite evolution (joint with Prof David Lambert (Griffith), Dr Malgorzata O'Reilly, Dr Bennet McComish and PhD candidate Tristan Stark)
  • Simulating hybrid evolution (joint with Prof Peter Lockhart (NZ), Dr Michael Woodhams)
  • Modelling convergent evolution (joint with Dr Jeremy Sumner and PhD candidate Jonathan Mitchell)
  • Mixture models of sequence evolution (joint with Prof Nigel Bean, Dr Jono Tuke and PhD candidate Stephen Crotty – all of Adelaide university)

Fields of Research

  • Biological Mathematics (010202)
  • Phylogeny and Comparative Analysis (060309)
  • Microbial Genetics (060503)
  • Molecular Evolution (060409)
  • Biostatistics (010402)
  • Bioinformatics Software (080301)
  • Stochastic Analysis and Modelling (010406)
  • Microbial Ecology (060504)
  • Biological Adaptation (060303)
  • Population, Ecological and Evolutionary Genetics (060411)
  • Astronomical and Space Sciences (020199)
  • Plant Biology (060799)
  • Bioinformatics (060102)
  • Epidemiology (111706)
  • Artificial Life (080102)
  • Host-Parasite Interactions (060307)
  • Archaeological Science (210102)
  • Statistics (010499)
  • Galactic Astronomy (020104)
  • Behavioural Ecology (060201)
  • Biogeography and Phylogeography (060302)
  • Environmental Science and Management (050299)
  • Speciation and Extinction (060311)
  • Signal Transduction (060111)
  • Evolutionary Impacts of Climate Change (060306)
  • Genomics (060408)
  • Plant Systematics and Taxonomy (060310)
  • Genetic Immunology (060406)
  • Statistical Theory (010405)

Research Objectives

  • Expanding Knowledge in the Biological Sciences (970106)
  • Expanding Knowledge in the Mathematical Sciences (970101)
  • Barley (820501)
  • Expanding Knowledge in the Physical Sciences (970102)
  • Flora, Fauna and Biodiversity at Regional or Larger Scales (960805)
  • Ecosystem Assessment and Management of Forest and Woodlands Environments (960505)
  • Environmental Health (920405)
  • Native Forests (820104)
  • Effects of Climate Change and Variability on Antarctic and Sub-Antarctic Environments (excl. Social Impacts) (960306)
  • Expanding Knowledge in History and Archaeology (970121)
  • Expanding Knowledge in Psychology and Cognitive Sciences (970117)
  • Sparseland, Permanent Grassland and Arid Zone Flora, Fauna and Biodiversity (960811)
  • Urban and Industrial Air Quality (960106)
  • Assessment and Evaluation of Curriculum (930301)
  • Expanding Knowledge in the Environmental Sciences (970105)
  • Computer Time Leasing, Sharing and Renting Services (890204)
  • Pedagogy (930201)

Publications

Barbara publishes in a mix of more mathematical and more biological journals. She peaked too soon by getting her name on a Science paper back when she  was doing a PhD. Since then she's always particularly pleased to get her work into Systematic Biology or Molecular Biology and Evolution. She was Associate Editor of Molecular Biology and Evolution between 2007-2012, and Senior Editor for the same journal between 2012-2015.

Total publications

84

Highlighted publications

(11 outputs)
YearTypeCitationAltmetrics
2010Journal ArticleHolland BR, Spencer HG, Worthy TH, Kennedy M, 'Identifying Cliques of Convergent Characters: Concerted Evolution in the Cormorants and Shags', Systematic Biology, 59, (4) pp. 433-445. ISSN 1063-5157 (2010) [Refereed Article]

DOI: 10.1093/sysbio/syq023 [eCite] [Details]

Citations: Scopus - 29Web of Science - 29

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2008Journal ArticleHolland BR, Benthin S, Lockhart PJ, Moulton V, Huber KT, 'Using supernetworks to distinguish hybridization from lineage-sorting', BMC Evolutionary Biology, 8, (1) EJ ISSN 1471-2148 (2008) [Refereed Article]

DOI: 10.1186/1471-2148-8-202 [eCite] [Details]

Citations: Scopus - 77Web of Science - 76

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2007Journal ArticleHolland BR, Conner G, Huber K, Moulton V, 'Imputing Supertrees and Supernetworks from Quartets', Systematic Biology, 56, (1) pp. 57-67. ISSN 1063-5157 (2007) [Refereed Article]

DOI: 10.1080/10635150601167013 [eCite] [Details]

Citations: Scopus - 29Web of Science - 27

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2006Journal ArticleHolland BR, Jermiin LS, Moulton V, 'Proceedings of the SMBE Tri-National Young Investigators' Workshop 2005: Improved Consensus Network Techniques for Genome-Scale Phylogeny', Molecular Biology and Evolution, 23, (5) pp. 848-855. ISSN 0737-4038 (2006) [Refereed Article]

DOI: 10.1093/molbev/msj061 [eCite] [Details]

Citations: Scopus - 26Web of Science - 26

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2005Journal ArticleGoremykin V, Holland BR, Hirsch-Ernst KI, Hellwig FH, 'Analysis of Acorus calamus Chloroplast Genome and Its Phylogenetic Implications', Molecular Biology and Evolution, 22, (9) pp. 1813-1822. ISSN 0737-4038 (2005) [Refereed Article]

DOI: 10.1093/molbev/msi173 [eCite] [Details]

Citations: Scopus - 95Web of Science - 101

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2005Journal ArticleKennedy M, Holland BR, Gray RD, Spencer HG, 'Untangling Long Branches: Identifying Conflicting Phylogenetic Signals Using Spectral Analysis, Neighbor-Net, and Consensus Networks', Systematic Biology, 54, (4) pp. 620-633. ISSN 1063-5157 (2005) [Refereed Article]

DOI: 10.1080/106351591007462 [eCite] [Details]

Citations: Scopus - 43Web of Science - 42

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2004Journal ArticleHolland BR, Huber KT, Moulton V, Lockhart PJ, 'Using Consensus Networks to Visualize Contradictory Evidence for Species Phylogeny', Molecular Biology and Evolution, 21, (7) pp. 1459-1461. ISSN 0737-4038 (2004) [Refereed Article]

DOI: 10.1093/molbev/msh145 [eCite] [Details]

Citations: Scopus - 110Web of Science - 107

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2003Conference PublicationHolland BR, Moulton V, 'Consensus Networks: A Method for Visualising Incompatibilities in Collections of Trees', Algorithms in Bioinformatics, 15-20 September 2003, Budapest, Hungary, pp. 165-176. ISBN 3-540-20076-2 (2003) [Refereed Conference Paper]

[eCite] [Details]

2003Journal ArticleHolland BR, Penny D, Hendy MD, 'Outgroup Misplacement and Phylogenetic Inaccuracy Under a Molecular Clock-A Simulation Study', Systematic Biology, 52, (2) pp. 229-238. ISSN 1063-5157 (2003) [Refereed Article]

DOI: 10.1080/10635150390192771 [eCite] [Details]

Citations: Web of Science - 84

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2002Journal ArticleLambert DM, Ritchie PA, Millar CD, Holland BR, Drummond AJ, et al., 'Rates of Evolution in Ancient DNA from Adelie Penguins', Science, 295, (5563) pp. 2270-2273. ISSN 0036-8075 (2002) [Refereed Article]

DOI: 10.1126/science.1068105 [eCite] [Details]

Citations: Scopus - 218Web of Science - 210

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2000Journal ArticleChor B, Hendy MD, Holland BR, Penny D, 'Multiple Maxima of Likelihood in Phylogenetic Trees: An Analytic Approach', Molecular Biology and Evolution, 17, (10) pp. 1529-1541. ISSN 0737-4038 (2000) [Refereed Article]

DOI: 10.1093/oxfordjournals.molbev.a026252 [eCite] [Details]

Citations: Web of Science - 58

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Journal Article

(69 outputs)
YearCitationAltmetrics
2017Serdoz S, Egri-Nagy A, Sumner J, Holland BR, Jarvis PD, et al., 'Maximum likelihood estimates of pairwise rearrangement distances', Journal of Theoretical Biology, 423 pp. 31-40. ISSN 0022-5193 (2017) [Refereed Article]

DOI: 10.1016/j.jtbi.2017.04.015 [eCite] [Details]

Citations: Scopus - 1Web of Science - 1

Co-authors: Sumner J; Jarvis PD

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2017Stark TL, Liberles DA, Holland BR, O'Reilly MM, 'Analysis of a mechanistic Markov model for gene duplicates evolving under subfunctionalization', BMC Evolutionary Biology, 17, (38) pp. 1-16. ISSN 1471-2148 (2017) [Refereed Article]

DOI: 10.1186/s12862-016-0848-0 [eCite] [Details]

Co-authors: Stark TL; O'Reilly MM

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2017Sumner JG, Taylor A, Holland BR, Jarvis PD, 'Developing a statistically powerful measure for quartet tree inference using phylogenetic identities and Markov invariants', Journal of Mathematical Biology, 75, (6-7) pp. 1619-1654. ISSN 0303-6812 (2017) [Refereed Article]

DOI: 10.1007/s00285-017-1129-2 [eCite] [Details]

Co-authors: Sumner JG; Jarvis PD

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2017Worth JRP, Holland BR, Beeton NJ, Schonfeld B, Rossetto M, et al., 'Habitat type and dispersal mode underlie the capacity for plant migration across an intermittent seaway', Annuals of Botany, 120, (4) pp. 539-549. ISSN 0305-7364 (2017) [Refereed Article]

DOI: 10.1093/aob/mcx086 [eCite] [Details]

Co-authors: Beeton NJ; Schonfeld B; Vaillancourt RE; Jordan GJ

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2017Steane DA, Potts BM, McLean EH, Collins L, Holland BR, et al., 'Genomic scans across three eucalypts suggest that adaptation to aridity is a genome-wide phenomenon', Genome Biology and Evolution, 9, (2) pp. 253-265. ISSN 1759-6653 (2017) [Refereed Article]

DOI: 10.1093/gbe/evw290 [eCite] [Details]

Citations: Scopus - 3Web of Science - 1

Co-authors: Steane DA; Potts BM; Vaillancourt RE

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2016Humphries MA, Bruno R, Lai FY, Thai PK, Holland BR, et al., 'Evaluation of monitoring schemes for wastewater-based epidemiology to identify drug use trends using cocaine, methamphetamine, MDMA and methadone', Environmental Science and Technology, 50, (9) pp. 4760-4768. ISSN 0013-936X (2016) [Refereed Article]

DOI: 10.1021/acs.est.5b06126 [eCite] [Details]

Citations: Scopus - 2Web of Science - 3

Co-authors: Humphries MA; Bruno R

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2016Schmid J, Magee PT, Holland BR, Zhang N, Cannon RD, et al., 'Last hope for the doomed? Thoughts on the importance of a parasexual cycle for the yeast Candida albicans', Current Genetics, 62, (1) pp. 81-85. ISSN 0172-8083 (2016) [Refereed Article]

DOI: 10.1007/s00294-015-0516-8 [eCite] [Details]

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2016Woodhams MD, Lockhart PJ, Holland BR, 'Simulating and summarizing sources of gene tree incongruence', Genome Biology and Evolution, 8, (5) pp. 1299-1315. ISSN 1759-6653 (2016) [Refereed Article]

DOI: 10.1093/gbe/evw065 [eCite] [Details]

Citations: Scopus - 1

Co-authors: Woodhams MD

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2016Bruniche-Olsen A, Austin JJ, Jones ME, Holland BR, Burridge CP, 'Detecting selection on temporal and spatial scales: a genomic time-series assessment of selective responses to devil facial tumor disease', PLoS One, 11, (3) Article e0147875. ISSN 1932-6203 (2016) [Refereed Article]

DOI: 10.1371/journal.pone.0147875 [eCite] [Details]

Citations: Scopus - 3Web of Science - 3

Co-authors: Jones ME; Burridge CP

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2016Manning EM, Holland BR, Ellingsen SP, Breen SL, Chen X, et al., 'Comparison of three statistical classification techniques for maser identification', Publications of the Astronomical Society of Australia, 33 Article e015. ISSN 1448-6083 (2016) [Refereed Article]

DOI: 10.1017/pasa.2016.13 [eCite] [Details]

Citations: Web of Science - 1

Co-authors: Manning EM; Ellingsen SP; Humphries M

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2015Fearnhead P, Yu S, Biggs P, Holland B, French N, 'Estimating the relative rate of recombination to mutation in bacteria from single-locus variants using composite likelihood methods', The Annals of Applied Statistics, 9, (1) pp. 200-224. ISSN 1932-6157 (2015) [Refereed Article]

DOI: 10.1214/14-AOAS795 [eCite] [Details]

Citations: Scopus - 2Web of Science - 2

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2015Larcombe MJ, Holland B, Steane DA, Jones RC, Nicolle D, et al., 'Patterns of reproductive isolation in Eucalyptus - a phylogenetic perspective', Molecular Biology and Evolution, 32, (7) pp. 1833-1846. ISSN 0737-4038 (2015) [Refereed Article]

DOI: 10.1093/molbev/msv063 [eCite] [Details]

Citations: Scopus - 12Web of Science - 11

Co-authors: Larcombe MJ; Steane DA; Jones RC; Vaillancourt RE; Potts BM

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2015Wasef S, Wood R, El Merghani S, Ikram S, Curtis C, et al., 'Radiocarbon dating of Sacred Ibis mummies from ancient Egypt', Journal of Archaeological Science: Reports, 4 pp. 355-361. ISSN 2352-409X (2015) [Refereed Article]

DOI: 10.1016/j.jasrep.2015.09.020 [eCite] [Details]

Citations: Scopus - 2

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2015Zhang N, Magee BB, Magee PT, Holland BR, Rodrigues E, et al., 'Selective advantages of a parasexual cycle for the yeast Candida albicans', Genetics, 200, (4) pp. 1117-1132. ISSN 1943-2631 (2015) [Refereed Article]

DOI: 10.1534/genetics.115.177170 [eCite] [Details]

Citations: Scopus - 3Web of Science - 4

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2014Binney BM, Biggs PJ, Carter PE, Holland BR, French NP, 'Quantification of historical livestock importation into New Zealand 1860-1979', New Zealand Veterinary Journal, 62, (6) pp. 309-314. ISSN 0048-0169 (2014) [Refereed Article]

DOI: 10.1080/00480169.2014.914861 [eCite] [Details]

Citations: Scopus - 3Web of Science - 3

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2014Bruniche-Olsen A, Jones ME, Austin JJ, Burridge CP, Holland BR, 'Extensive population decline in the Tasmanian devil predates European settlement and devil facial tumour disease', Biology Letters, 10, (11) Article 20140619. ISSN 1744-9561 (2014) [Refereed Article]

DOI: 10.1098/rsbl.2014.0619 [eCite] [Details]

Citations: Scopus - 17Web of Science - 11

Co-authors: Jones ME; Burridge CP

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2014Harris RL, Holland BR, Cameron EZ, Davies NW, Nicol SC, 'Chemical signals in the echidna: differences between seasons, sexes, individuals and gland types', Journal of Zoology, 293, (3) pp. 171-180. ISSN 0952-8369 (2014) [Refereed Article]

DOI: 10.1111/jzo.12133 [eCite] [Details]

Citations: Scopus - 4Web of Science - 3

Co-authors: Harris RL; Cameron EZ; Davies NW; Nicol SC

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2014Sumner JG, Jarvis PD, Holland BR, 'A tensorial approach to the inversion of group-based phylogenetic models', BMC Evolutionary Biology, 14 Article 236. ISSN 1471-2148 (2014) [Refereed Article]

DOI: 10.1186/s12862-014-0236-6 [eCite] [Details]

Co-authors: Sumner JG; Jarvis PD

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2014Baxter RB, Dobbie PD, Parker QA, Casewell SL, Lodieu N, et al., 'Component masses of young, wide, non-magnetic white dwarf binaries in the Sloan Digital Sky Survey Data Release 7', Monthly Notices of the Royal Astronomical Society, 440, (4) pp. 3184-3201. ISSN 0035-8711 (2014) [Refereed Article]

DOI: 10.1093/mnras/stu464 [eCite] [Details]

Citations: Scopus - 1Web of Science - 9

Co-authors: Dobbie PD

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2013Blanke A, Greve C, Wipfler B, Beutel R, Holland BR, et al., 'The identification of concerted convergence in insect heads corroborates Palaeoptera', Systematic Biology, 62, (2) pp. 250-263. ISSN 1063-5157 (2013) [Refereed Article]

DOI: 10.1093/sysbio/sys091 [eCite] [Details]

Citations: Scopus - 19Web of Science - 20

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2013Cox MP, Holland BR, Wilkins MC, Schmid J, 'Reconstructing past changes in locus-specific recombination rates', BMC Genetics, 14 Article 11. ISSN 1471-2156 (2013) [Refereed Article]

DOI: 10.1186/1471-2156-14-11 [eCite] [Details]

Citations: Scopus - 3

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2013Holland BR, 'The rise of statistical phylogenetics', Australian and New Zealand Journal of Statistics, 55, (3) pp. 205-220. ISSN 1369-1473 (2013) [Refereed Article]

DOI: 10.1111/anzs.12035 [eCite] [Details]

Citations: Web of Science - 1

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2013Holland BR, Jarvis PD, Sumner JG, 'Low-parameter phylogenetic inference under the general Markov model', Systematic Biology, 62, (1) pp. 78-92. ISSN 1063-5157 (2013) [Refereed Article]

DOI: 10.1093/sysbio/sys072 [eCite] [Details]

Citations: Scopus - 11Web of Science - 11

Co-authors: Jarvis PD; Sumner JG

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2013Mohan V, Stevenson M, Marshall J, Fearnhead P, Holland BR, et al., 'Campylobacter jejuni colonization and population structure in urban populations of ducks and starlings in New Zealand', MicrobiologyOpen, 2, (4) pp. 659-673. ISSN 2045-8827 (2013) [Refereed Article]

DOI: 10.1002/mbo3.102 [eCite] [Details]

Citations: Scopus - 4Web of Science - 3

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2013Woodhams M, Steane DA, Jones RC, Nicolle D, Moulton V, et al., 'Novel distances for Dollo data', Systematic Biology, 62, (1) pp. 62-77. ISSN 1063-5157 (2013) [Refereed Article]

DOI: 10.1093/sysbio/sys071 [eCite] [Details]

Citations: Scopus - 13Web of Science - 11

Co-authors: Woodhams M; Steane DA; Jones RC

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2013Grievink LS, Penny D, Holland BR, 'Missing data and influential sites: Choice of sites for phylogenetic analysis can be as important as taxon sampling and model choice', Genome Biology and Evolution, 5, (4) pp. 681-687. ISSN 1759-6653 (2013) [Refereed Article]

DOI: 10.1093/gbe/evt032 [eCite] [Details]

Citations: Scopus - 8Web of Science - 7

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2012Eytan RI, Hastings PA, Holland BR, Hellberg ME, 'Reconciling molecules and morphology: Molecular systematics and biogeography of Neotropical blennies (Acanthemblemaria)', Molecular Phylogenetics and Evolution, 62, (1) pp. 159-173. ISSN 1055-7903 (2012) [Refereed Article]

DOI: 10.1016/j.ympev.2011.09.028 [eCite] [Details]

Citations: Scopus - 5Web of Science - 4

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2012Saurabh K, Holland BR, Gibb GC, Penny D, 'Gaps: an elusive source of phylogenetic information', Systematic Biology, 61, (6) pp. 1075-1082. ISSN 1063-5157 (2012) [Refereed Article]

DOI: 10.1093/sysbio/sys043 [eCite] [Details]

Citations: Scopus - 8Web of Science - 6

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2012Sumner JG, Holland BR, Jarvis PD, 'The Algebra of the General Markov Model on Phylogenetic Trees and Networks', Bulletin of Mathematical Biology, 74, (4) pp. 858-880. ISSN 1522-9602 (2012) [Refereed Article]

DOI: 10.1007/s11538-011-9691-z [eCite] [Details]

Citations: Scopus - 6Web of Science - 8

Co-authors: Sumner JG; Jarvis PD

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2012Sumner JG, Jarvis PD, Fernandez-Sanchez J, Kaine BT, Woodhams MD, et al., 'Is the general time-reversible model bad for molecular phylogenetics?', Systematic Biology, 61, (6) pp. 1069-1074. ISSN 1063-5157 (2012) [Refereed Article]

DOI: 10.1093/sysbio/sys042 [eCite] [Details]

Citations: Scopus - 15Web of Science - 14

Co-authors: Sumner JG; Jarvis PD; Kaine BT; Woodhams MD

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2012Yu S, Fearnhead P, Holland BR, Biggs P, Maiden M, et al., 'Estimating the relative roles of recombination and point mutation in the generation of single locus variants in Campylobacter jejuni and Campylobacter coli', Journal of Molecular Evolution, 74, (5-6) pp. 273-280. ISSN 0022-2844 (2012) [Refereed Article]

DOI: 10.1007/s00239-012-9505-4 [eCite] [Details]

Citations: Scopus - 4Web of Science - 5

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2012Johnson KA, Holland BR, Heslewood MM, Crayn DM, 'Supermatrices, supertrees and serendipitous scaffolding: Inferring a well-resolved, genus-level phylogeny of Styphelioideae (Ericaceae) despite missing data', Molecular Phylogenetics and Evolution, 62, (1) pp. 146-158. ISSN 1055-7903 (2012) [Refereed Article]

DOI: 10.1016/j.ympev.2011.09.011 [eCite] [Details]

Citations: Scopus - 14Web of Science - 12

Co-authors: Johnson KA

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2011White WTJ, Holland BR, 'Faster exact maximum parsimony search with XMP', Bioinformatics, 27, (10) pp. 1359-1367. ISSN 1367-4803 (2011) [Refereed Article]

DOI: 10.1093/bioinformatics/btr147 [eCite] [Details]

Citations: Scopus - 6Web of Science - 6

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2010Grievink LS, Penny D, Hendy MD, Holland BR, 'Phylogenetic Tree Reconstruction Accuracy and Model Fit when Proportions of Variable Sites Change across the Tree', Systematic Biology, 59, (3) pp. 288-297. ISSN 1063-5157 (2010) [Refereed Article]

DOI: 10.1093/sysbio/syq003 [eCite] [Details]

Citations: Scopus - 9Web of Science - 9

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2010Holland BR, Spencer HG, Worthy TH, Kennedy M, 'Identifying Cliques of Convergent Characters: Concerted Evolution in the Cormorants and Shags', Systematic Biology, 59, (4) pp. 433-445. ISSN 1063-5157 (2010) [Refereed Article]

DOI: 10.1093/sysbio/syq023 [eCite] [Details]

Citations: Scopus - 29Web of Science - 29

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2010McGaughran A, Holland BR, 'Testing the Effect of Metabolic Rate on DNA Variability at the Intra-Specific Level', PLOS One, 5, (3) EJ ISSN 1932-6203 (2010) [Refereed Article]

DOI: 10.1371/journal.pone.0009686 [eCite] [Details]

Citations: Scopus - 6Web of Science - 5

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2010McGraughran A, Stevens M, Holland BR, 'Biogeography of Circum-Antarctic springtails. ', Molecular Phylogenetics and Evolution, 57, (1) pp. 48-58. ISSN 1055-7903 (2010) [Refereed Article]

DOI: 10.1016/j.ympev.2010.06.003 [eCite] [Details]

Citations: Scopus - 15Web of Science - 9

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2010Zhang N, Cannon RD, Holland BR, Patchett ML, Schmid J, 'Impact of Genetic Background on Allele Selection in a Highly Mutable Candida albicans Gene, PNG', PLOS One, 5, (3) EJ ISSN 1932-6203 (2010) [Refereed Article]

DOI: 10.1371/journal.pone.0009614 [eCite] [Details]

Citations: Scopus - 5Web of Science - 5

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2010de Nooijer S, Holland BR, Penny D, 'The Emergence of Predators in Early Life: There was No Garden of Eden', PLOS One, 4, (6) EJ ISSN 1932-6203 (2010) [Refereed Article]

DOI: 10.1371/journal.pone.0005507 [eCite] [Details]

Citations: Scopus - 6Web of Science - 6

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2009French NP, Midwinter A, Holland BR, Collins-Emerson J, Pattison R, et al., 'Molecular Epidemiology of Campylobacter jejuni Isolates from Wild-Bird Fecal Material in Children's Playgrounds', Applied and Environmental Microbiology, 75, (3) pp. 779-783. ISSN 0099-2240 (2009) [Refereed Article]

DOI: 10.1128/AEM.01979-08 [eCite] [Details]

Citations: Scopus - 68Web of Science - 58

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2009Zhang N, Upritchard JE, Holland BR, Fenton LE, Ferguson MM, et al., 'Distribution of mutations distinguishing the most prevalent disease-causing Candida albicans genotype from other genotypes', Infection, Genetics and Evolution, 9, (4) pp. 493-500. ISSN 1567-1348 (2009) [Refereed Article]

DOI: 10.1016/j.meegid.2009.01.007 [eCite] [Details]

Citations: Scopus - 6Web of Science - 7

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2008Holland BR, Benthin S, Lockhart PJ, Moulton V, Huber KT, 'Using supernetworks to distinguish hybridization from lineage-sorting', BMC Evolutionary Biology, 8, (1) EJ ISSN 1471-2148 (2008) [Refereed Article]

DOI: 10.1186/1471-2148-8-202 [eCite] [Details]

Citations: Scopus - 77Web of Science - 76

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2008Shepherd LD, Holland BR, Perrie LR, 'Conflict amongst chloroplast DNA sequences obscures the phylogeny of a group of Aspenium ferns ', Molecular Phylogenetics and Evolution, 48, (1) pp. 176-187. ISSN 1055-7903 (2008) [Refereed Article]

DOI: 10.1016/j.ympev.2008.02.023 [eCite] [Details]

Citations: Scopus - 15Web of Science - 15

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2008Grievink LS, Penny D, Hendy MD, Holland BR, 'LineageSpecificSeqgen: generating sequence data with lineage-specific variation in the proportion of variable sites', BMC Evolutionary Biology, 8, (1) pp. 1-6. ISSN 1471-2148 (2008) [Refereed Article]

DOI: 10.1186/1471-2148-8-317 [eCite] [Details]

Citations: Scopus - 10Web of Science - 10

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2008Holland BR, Clarke AC, Meudt HM, 'Optimizing Automated AFLP Scoring Parameters to Improve Phylogenetic Resolution', Systematic Biology, 57, (3) pp. 347-366. ISSN 1063-5157 (2008) [Refereed Article]

DOI: 10.1080/10635150802044037 [eCite] [Details]

Citations: Scopus - 80Web of Science - 83

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2007Shavit L, Penny D, Hendy MD, Holland BR, 'The Problem of Rooting Rapid Radiations', Molecular Biology and Evolution, 24, (11) pp. 2400-2411. ISSN 0737-4038 (2007) [Refereed Article]

DOI: 10.1093/molbev/msm178 [eCite] [Details]

Citations: Scopus - 50Web of Science - 48

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2007Holland BR, Conner G, Huber K, Moulton V, 'Imputing Supertrees and Supernetworks from Quartets', Systematic Biology, 56, (1) pp. 57-67. ISSN 1063-5157 (2007) [Refereed Article]

DOI: 10.1080/10635150601167013 [eCite] [Details]

Citations: Scopus - 29Web of Science - 27

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2007White WT, Hills SF, Gaddam R, Holland BR, Penny D, 'Treeness Triangles: Visualising the Loss of Phylogenetic Signal', Molecular Biology and Evolution, 24, (9) pp. 1529-1541. ISSN 0737-4038 (2007) [Refereed Article]

DOI: 10.1093/molbev/msm139 [eCite] [Details]

Citations: Scopus - 18Web of Science - 17

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2006Auch AF, Henz SR, Holland BR, Goker M, 'Genome BLAST distance phylogenies inferred from whole plastic and whole mitochondrion genome sequences', BMC Bioinformatics, 7, (July) pp. 1-16. ISSN 1471-2105 (2006) [Refereed Article]

DOI: 10.1186/1471-2105-7-350 [eCite] [Details]

Citations: Scopus - 33Web of Science - 31

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2006Holland BR, Jermiin LS, Moulton V, 'Proceedings of the SMBE Tri-National Young Investigators' Workshop 2005: Improved Consensus Network Techniques for Genome-Scale Phylogeny', Molecular Biology and Evolution, 23, (5) pp. 848-855. ISSN 0737-4038 (2006) [Refereed Article]

DOI: 10.1093/molbev/msj061 [eCite] [Details]

Citations: Scopus - 26Web of Science - 26

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2006Holmes AR, Tsao S, Ong SW, Lamping E, Niimi K, et al., 'Heterozygosity and functional allelic variation in the Candida albicans efflux pump genes CDR1 and CDR2', Molecular Microbiology, 62, (1) pp. 170-186. ISSN 0950-382X (2006) [Refereed Article]

DOI: 10.1111/j.1365-2958.2006.05357.x [eCite] [Details]

Citations: Scopus - 43Web of Science - 42

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2006Pierson MJ, Martinez-Arias R, Holland BR, Gemmell NJ, Hurles ME, et al., 'Deciphering Past Human Population Movements in Oceania: Provably Optimal Trees of 127 mtDNA Genomes', Molecular Biology and Evolution, 23, (10) pp. 1966-1975. ISSN 0737-4038 (2006) [Refereed Article]

DOI: 10.1093/molbev/msl063 [eCite] [Details]

Citations: Scopus - 45Web of Science - 47

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2005Dress A, Holland BR, Huber KT, Koolen JH, Moulton V, et al., 'Δ additive and Δ ultra-additive maps, Gromov's trees, and the Farris transform', Discrete Applied Mathematics: Combinatorial Operations Research and Computer Science, 146, (1) pp. 51-73. ISSN 0166-218X (2005) [Refereed Article]

DOI: 10.1016/j.dam.2003.01.003 [eCite] [Details]

Citations: Scopus - 16Web of Science - 10

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2005Goremykin V, Holland BR, Hirsch-Ernst KI, Hellwig FH, 'Analysis of Acorus calamus Chloroplast Genome and Its Phylogenetic Implications', Molecular Biology and Evolution, 22, (9) pp. 1813-1822. ISSN 0737-4038 (2005) [Refereed Article]

DOI: 10.1093/molbev/msi173 [eCite] [Details]

Citations: Scopus - 95Web of Science - 101

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2005Holland BR, Huber KT, Penny D, Moulton V, 'The Min/Max Squeeze: Guaranteeing a Minimal Tree for Population Data', Molecular Biology and Evolution, 22, (2) pp. 235-242. ISSN 0737-4038 (2005) [Refereed Article]

DOI: 10.1093/molbev/msi010 [eCite] [Details]

Citations: Scopus - 15Web of Science - 10

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2005Holland BR, Schmid J, 'Selecting representative model micro-organisms', BMC Microbiology, 5, (May) pp. 1-11. ISSN 1471-2105 (2005) [Refereed Article]

DOI: 10.1186/1471-2180-5-26 [eCite] [Details]

Citations: Scopus - 5Web of Science - 3

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2005Kennedy M, Holland BR, Gray RD, Spencer HG, 'Untangling Long Branches: Identifying Conflicting Phylogenetic Signals Using Spectral Analysis, Neighbor-Net, and Consensus Networks', Systematic Biology, 54, (4) pp. 620-633. ISSN 1063-5157 (2005) [Refereed Article]

DOI: 10.1080/106351591007462 [eCite] [Details]

Citations: Scopus - 43Web of Science - 42

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2004Holland BR, Huber KT, Moulton V, Lockhart PJ, 'Using Consensus Networks to Visualize Contradictory Evidence for Species Phylogeny', Molecular Biology and Evolution, 21, (7) pp. 1459-1461. ISSN 0737-4038 (2004) [Refereed Article]

DOI: 10.1093/molbev/msh145 [eCite] [Details]

Citations: Scopus - 110Web of Science - 107

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2004Schmid J, Cannon RD, Holland BR, 'A futile act? Thoughts on the reproductive biology of Candida albicans', Mycologist, 18, (4) pp. 158-163. ISSN 0269-915X (2004) [Refereed Article]

DOI: 10.1017/S0269915X0400415X [eCite] [Details]

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2003Gardner PP, Holland BR, Moulton V, Hendy M, Penny D, 'Optimal alphabets for an RNA world', Proceedings of the Royal Society of London, 270, (1520) pp. 1177-1182. ISSN 0370-1662 (2003) [Refereed Article]

DOI: 10.1098/rspb.2003.2355 [eCite] [Details]

Citations: Scopus - 11Web of Science - 10

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2003Hendy MD, Holland BR, 'Upper bounds on maximum likelihood for phylogenetic trees', Bioinformatics, 19, (2) pp. ii66-ii72. ISSN 1367-4803 (2003) [Refereed Article]

DOI: 10.1093/bioinformatics/btg1062 [eCite] [Details]

Citations: Scopus - 8Web of Science - 2

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2003Holland BR, Penny D, Hendy MD, 'Outgroup Misplacement and Phylogenetic Inaccuracy Under a Molecular Clock-A Simulation Study', Systematic Biology, 52, (2) pp. 229-238. ISSN 1063-5157 (2003) [Refereed Article]

DOI: 10.1080/10635150390192771 [eCite] [Details]

Citations: Web of Science - 84

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2003Salemi M, De Oliveira T, Courgnaud V, Moulton V, Holland BR, et al., 'Mosaic Genomes of the Six Major Primate Lentivirus Lineages Revealed by Phylogenetic Analyses', Journal of Virology, 77, (13) pp. 7202-7213. ISSN 0022-538X (2003) [Refereed Article]

DOI: 10.1128/JVI.77.13.7202-7213.2003 [eCite] [Details]

Citations: Scopus - 33Web of Science - 30

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2003Strimmer K, Forslund K, Holland BR, Moulton V, 'A novel exploratory method for visual recombination detection', Genome Biology, 4, (5) pp. R33. ISSN 1465-6914 (2003) [Refereed Article]

DOI: 10.1186/gb-2003-4-5-r338976 [eCite] [Details]

Citations: Web of Science - 13

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2003Wagele JW, Holland BR, Dreyer H, Hackethal B, 'Searching factors causing implausible non-monophyly: ssu rDNA phylogeny of Isopoda Asellota (Crustacea: Peracarida) and faster evolution in marine than in freshwater habitats', Molecular Phylogenetics and Evolution, 28, (3) pp. 536-551. ISSN 1055-7903 (2003) [Refereed Article]

DOI: 10.1016/S1055-7903(03)00053-8 [eCite] [Details]

Citations: Scopus - 11Web of Science - 11

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2003Zhang N, Harrex AL, Holland BR, Fenton LE, Cannon RD, et al., 'Sixty Alleles of the ALS7 Open Reading Frame in Candida albicans: ALS7 Is a Hypermutable Contingency Locus', Genome Research, 13, (9) pp. 2005-2017. ISSN 1088-9051 (2003) [Refereed Article]

DOI: 10.1101/gr.1024903 [eCite] [Details]

Citations: Scopus - 43Web of Science - 40

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2002Holland BR, Huber KT, Dress A, Moulton V, 'a Plots: A Tool for Analyzing Phylogenetic Distance Data', Molecular Biology and Evolution, 19, (12) pp. 2051-2059. ISSN 0737-4038 (2002) [Refereed Article]

DOI: 10.1093/oxfordjournals.molbev.a004030 [eCite] [Details]

Citations: Web of Science - 52

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2002Lambert DM, Ritchie PA, Millar CD, Holland BR, Drummond AJ, et al., 'Rates of Evolution in Ancient DNA from Adelie Penguins', Science, 295, (5563) pp. 2270-2273. ISSN 0036-8075 (2002) [Refereed Article]

DOI: 10.1126/science.1068105 [eCite] [Details]

Citations: Scopus - 218Web of Science - 210

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2000Chor B, Hendy MD, Holland BR, Penny D, 'Multiple Maxima of Likelihood in Phylogenetic Trees: An Analytic Approach', Molecular Biology and Evolution, 17, (10) pp. 1529-1541. ISSN 0737-4038 (2000) [Refereed Article]

DOI: 10.1093/oxfordjournals.molbev.a026252 [eCite] [Details]

Citations: Web of Science - 58

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Chapter in Book

(4 outputs)
YearCitationAltmetrics
2017Jarvis PD, Holland BR, Sumner JG, 'Phylogenetic Invariants and Markov Invariants', Reference Module in Life Sciences, Elsevier, BD Roitberg (ed), Amsterdam, Netherlands, pp. 1-3. ISBN 9780128096338 (2017) [Revised Book Chapter]

DOI: 10.1016/B978-0-12-809633-8.06903-X [eCite] [Details]

Co-authors: Jarvis PD; Sumner JG

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2014French N, Yu S, Biggs P, Holland B, Fearnhead P, et al., 'Evolution of Campylobacter Species in New Zealand', Campylobacter Ecology and Evolution, Caister Academic Press, SK Sheppard, G Meric (ed), United Kingdom, pp. 221-240. ISBN 978-1-908230-36-2 (2014) [Research Book Chapter]

[eCite] [Details]

2013Jarvis PD, Holland BR, Sumner JG, 'Phylogenetic Invariants', Brenner's Encyclopedia of Genetics, Academic Press Ltd Elsevier Science Ltd, S Maloy, K Hughes (ed), United Kingdom, pp. 321-323. ISBN 978-0-08-096156-9 (2013) [Other Book Chapter]

DOI: 10.1016/B978-0-12-374984-0.09001-X [eCite] [Details]

Co-authors: Jarvis PD; Sumner JG

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2007Penny D, Hendy MD, Holland BR, 'Phylogenetics: Parsimony, Networks, and Distance Methods', Handbook of Statistical Genetics, John Wiley & Sons, Ltd, DJ Balding, M Bishop and C Cannings (ed), West Sussex, England, pp. 489-532. ISBN 978-0-470-05830-5 (2007) [Revised Book Chapter]

[eCite] [Details]

Review

(2 outputs)
YearCitationAltmetrics
2015Holland BR, 'Book review - Molecular Evolution: A Statistical Approach', Systematic Biology, 64, (3) pp. 545-546. ISSN 1063-5157 (2015) [Review Single Work]

DOI: 10.1093/sysbio/syv002 [eCite] [Details]

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2007Holland BR, 'Analysis of Phylogenetics and Evolution with R', Systematic Biology, 56, (4) pp. 694-696. (2007) [Review Single Work]

DOI: 10.1080/10635150701475589 [eCite] [Details]

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Conference Publication

(8 outputs)
YearCitationAltmetrics
2016Humphries MA, Holland BR, Reynolds AR, Bruno RB, 'Cognitive models in the extreme', Australian Mathematical Psychology Conference 2016, 10-12 February, 2016, Hobart, Tasmania (2016) [Conference Extract]

[eCite] [Details]

Co-authors: Humphries MA; Reynolds AR; Bruno RB

2012Humphries MA, Holland BR, Karpievitch YV, Sumner JG, 'To gamma or not to gamma? Testing the fit of rates-across-sites models', Phylomania 2012, 8-9 November 2012, University of Tasmania, Hobart, pp. 7. (2012) [Conference Extract]

[eCite] [Details]

Co-authors: Humphries MA; Karpievitch YV; Sumner JG

2011Kaur M, Stewart DC, Janusz A, Bowman JP, Holland BR, et al., 'Tapping into barley malt associated microbial diversity using next generation sequencing', Proceedings of the 15th Australian Barley Technical Symposium, 18-21 September 2011, Adelaide, Australia (2011) [Conference Extract]

[eCite] [Details]

Co-authors: Kaur M; Bowman JP; Evans DE

2011Kaur M, Stewart DC, Janusz A, Bowman JP, Holland BR, et al., 'Assessing barley malt associated microbial diversity using next generation sequencing', 2011 Australian Society for Microbiology Annual Meeting, Hobart, Australia (2011) [Conference Extract]

[eCite] [Details]

Co-authors: Kaur M; Bowman JP; Evans DE

2006Holland BR, Conner G, Huber KT, Moulton V, 'Imputing Supertrees and Supernetworks from Quartets', Lecture Notes in Bioinformatics: Algorithms in Bioinformatics: 6th International Workshop, WABI 2006, 11-13 September 2006, Zurich, Switzerland, pp. 162. ISBN 978-3-540-39583-6 (2006) [Conference Extract]

[eCite] [Details]

2006Holland BR, Schardl CJ, Schmid J, 'Endophyte survival without sex', Proceedings of the 6th International Symposium on Fungal Endophytes of Grasses, 25-28 March 2006, Christchurch, New Zealand, pp. 151-154. (2006) [Refereed Conference Paper]

[eCite] [Details]

2003Holland BR, Moulton V, 'Consensus Networks: A Method for Visualising Incompatibilities in Collections of Trees', Algorithms in Bioinformatics, 15-20 September 2003, Budapest, Hungary, pp. 165-176. ISBN 3-540-20076-2 (2003) [Refereed Conference Paper]

[eCite] [Details]

2000Chor B, Hendy MD, Holland BR, Penny D, 'Multiple Maxima of Likelihood in Phylogenetic Trees: An Analytic Approach', RECOMB 2000: Proceedings of the Fourth Annual International Conference on Computational Molecular Biology, 8-11 April 2000, Tokyo, Japan, pp. 108-117. ISBN 1-58113-186-0 (2000) [Refereed Conference Paper]

[eCite] [Details]

Thesis

(1 outputs)
YearCitationAltmetrics
2001Holland BR, 'Evolutionary analyses of large data sets: Trees and beyond' (2001) [PhD]

[eCite] [Details]

Grants & Funding

Jointly with Dr Jeremy Sumner and Dr Peter Jarvis, Barbara currently has an ARC Discovery grant to study the algebraic properties of models of biological sequence evolution. Prospective students who are interested in the ways algebraic structure informs how we can best construct evolutionary models should feel free to get in touch.

Funding Summary

Number of grants

10

Total funding

$3,354,674

Projects

Reconstructing the evolution of climatic tolerances in conifers (2016 - 2018)$357,700
Description
This project aims to trace the evolution of climate tolerance in conifers by combining evidence from fossils,phylogenies, physiology and mathematics. Innovative methods will be used to overcome significant biases inmethods currently used to trace evolutionary change. The project will integrate data from three sources: 1) theglobal fossil record; 2) new models of current climatic tolerances of conifers; and 3) mathematical simulations ofhow and when methods of reconstructing ancestral ecology fail. The combined results should show how thisimportant group of organisms has responded to past climate change and how they will respond in the future. Itshould also provide improved estimates of past terrestrial climates.
Funding
Australian Research Council ($357,700)
Scheme
Grant-Discovery Projects
Administered By
University of Tasmania
Research Team
Jordan GJ; Holland BR; Anderegg W
Period
2016 - 2018
Grant Reference
DP160100809
Algebraically informed models of biological sequence evolution (2015 - 2017)$310,700
Description
To make sense of the patterns they see in the natural world, biologists across fields as diverse as genetics, epidemiology and biogeography need an accurate picture of evolutionary history. DNA sequences provide an exciting means to establish this picture of the past, but to decode it successfully requires mathematical models of how DNA evolves. Our team has identified mathematical inconsistencies with current approaches. In particular, understanding the effect of natural selection in different parts of the Tree of Life requires models that behave robustly in the face of shifting evolutionary processes. This project will use insights from algebraic methods to construct mathematically consistent models of wide biological utility.
Funding
Australian Research Council ($310,700)
Scheme
Grant-Discovery Projects
Administered By
University of Tasmania
Research Team
Holland BR; Sumner JG; Jarvis PD
Period
2015 - 2017
Grant Reference
DP150100088
The 17th Annual New Zealand Phylogenomics Meeting (2013)$1,250
Funding
University of Tasmania ($1,250)
Scheme
Grant-Conference Support Scheme
Administered By
University of Tasmania
Research Team
Holland BR
Year
2013
Redesigning the introductory statistics classroom to the 'inverted' style to improve student experience and material retention (2013)$34,000
Description
The goal of the project is to convert the flagship introductory statistics units to inverted-style. The specific aims are to: 1) develop and evaluate a teaching model for inverting an introductory statistics classroom by creating video lectures, online assessments, and interactive activities; 2) improve student experience in the introductory statistics unit and increase students' understanding and retention of material.
Funding
Office for Learning & Teaching ($34,000)
Scheme
Grant-Seed
Administered By
University of Tasmania
Research Team
Karpievitch YV; Holland BR; Chick HL
Year
2013
Ancient Ibis Mummies from Egypt: DNA Evolution - Math Modelling (2011 - 2015)$1,231,450
Funding
International Human Frontier Science Program Organization ($1,231,450)
Scheme
Grant-Program
Administered By
International Human Frontier Science Program Organization
Research Team
Lambert D; Holland BR; Ikram Salima
Period
2011 - 2015
How Will Animals Respond to Climate Change? A Genomic Approach (2011 - 2014)$875,998
Funding
Australian Research Council ($730,000)
Scheme
Grant-Linkage Projects Round 2
Administered By
Griffith University
Research Team
Lambert D; Holland BR
Period
2011 - 2014
Grant Reference
LP110200229
Increasing Bioinformatics capability across UTas (2011)$5,000
Funding
University of Tasmania ($5,000)
Scheme
Grant-Research Enhancement (REGS)
Administered By
University of Tasmania
Research Team
Holland BR
Year
2011
Interpreting biological sequence information: untangling hybridisation (2010 - 2014)$532,376
Description
Hybrid evolution plays a key role in speciation and adaptation, especially in plants. Hybrid species inherit genetic material from two parent species, making them hard to detect by studying single genes. Fortunately, innovations in DNA sequencing now make it affordable to study many genes simultaneously. Current methods for studying hybridisation assume that evolutionary relationships inferred for different genes are error-free, and all conflict is attributed to hybridisation. However, in reality conflict is often caused by estimation errors, the random nature of inheritance within populations, and missing data. This project will develop the computational tools necessary to analyse next generation sequence data to untangle hybrid evolution.
Funding
Australian Research Council ($532,376)
Scheme
Fellowship-Future
Administered By
University of Tasmania
Research Team
Holland BR
Period
2010 - 2014
Grant Reference
FT100100031
Phylogenetics: Mathematics, Models and Applications - UK, 2011 (2010)$1,200
Funding
University of Tasmania ($1,200)
Scheme
Grant-Conference Support Scheme
Administered By
University of Tasmania
Research Team
Holland BR
Year
2010
NARGS - Recovering complex evolutionary histories with censored data (2010)$5,000
Funding
University of Tasmania ($5,000)
Scheme
Grant-New Appointees Research Grant Scheme (NARGS)
Administered By
University of Tasmania
Research Team
Holland BR
Year
2010

Research Supervision

Barbara has supervised 9 PhD students to successful completion of their doctorates. Many of her students have gone onto jobs in academia and postdoctoral positions around the globe. She is always on the lookout for students with a combination of mathematical and computing skills and a passion for problems in biology.

Current

4

Completed

2

Current

DegreeTitleCommenced
PhDStats, Drugs and Rock and Roll: Statistical applications to temporally autocorrelated substance use data2011
PhDMathematical Models for Microsatellite Evolution2014
PhDUsing Rheological Equations as a Model of Fluid Turbulence2016
PhDEvolution of Protein-coding Genes in Relation to Protein Structural and Functional Constraints2017

Completed

DegreeTitleCompleted
PhDDistinguishing Convergence on Phylogenetic Networks
Candidate: Jonathan David Mitchell
2016
PhDDemographic history of the Tasmanian devil (Sarcophilus harrisii) from Pleistocene to present
Candidate: Anna Brueniche-Olsen
2015