Publications
Peer-reviewed:
63. Pavlova A, Schneller N, Lintermans M, Beitzel M, Robledo-Ruiz D, Sunnucks P. (2024) Planning and implementing genetic rescue of an endangered freshwater fish population in a regulated river, where low flow reduces breeding opportunities and may trigger inbreeding depression. Evolutionary Applications, 17, e13679. https://doi.org/10.1111/eva.13679. Data available at https://doi.org/10.26180/19376570.
62. Rodger YS, Dillon R, Monroe K, Pavlova A, Coates DJ, Byrne M, Sunnucks P. (2024) Benefits of outcrossing and their implications for genetic management of an endangered species with mixed mating system. Restoration Ecology, 32, e14057. https://doi.org/10.1111/rec.14057. Data available at https://doi.org/10.26180/24532861
61. Robledo-Ruiz DA, Austin L, Amos JN, Castrejón-Figueroa J, Harley DKP, Magrath MJL, Sunnucks P, Pavlova A. (2023) Easy-to-use R functions to separate reduced-representation genomic datasets into sex-linked and autosomal loci, and conduct sex-assignment. Molecular Ecology Resources published online 2/08/2023. http://doi.org/10.1111/1755-0998.13844. Code available at https://github.com/drobledoruiz/conservation_genomics, data at https://doi.org/10.26180/21608028.v6.
60. Pavlova A, Petrovic S, Harrisson KA, Cartwright K, Dobson E, Hurley LL, Lane M, Magrath MJL, Miller KA, Quin B, Winterhoff M, Yen JDL, Sunnucks P. (2023) Benefits of genetic rescue of a critically endangered subspecies from another subspecies outweigh risks: Results of captive breeding trials. Biological Conservation https://doi.org/10.1016/j.biocon.2023.110203. Code available at https://doi.org/10.5281/zenodo.7735233, data at https://doi.org/10.26180/22139813
59. Yen JDL, Todd CR, Sharley J, Harris A, Geary WL, Kelly E, Pavlova A, Hunt TL, Ingram B, Lyon J, Tonkin Z. (2022) Establishing new populations in water-secure locations may benefit species persistence more than interventions in water-stressed locations. Biological Conservation, 276, 109812. https://doi.org/10.1016/j.biocon.2022.109812
58. Lutz ML, Sunnucks P, Chapple DG, Gilligan D, Lintermans M, Pavlova A. (2022) Strong bidirectional gene flow between fish lineages separated for over a 100,000 years. Conservation Genetics. https://rdcu.be/cXwco. Data available at https://doi.org/10.26180/16553151. Published online 13/10/2022
57. Robledo-Ruiz D, Gan HM, Kaur P, Dudchenko O, Weisz D, Khan R, Lieberman Aiden E, Osipova E, Hiller, M, Morales HE, Magrath MJL, Clarke R, Sunnucks P, Pavlova A. (2022) Chromosome-length genome assembly and linkage map of a Critically Endangered Australian bird: the helmeted honeyeater. GigaScience, 11, 1-13. https://doi.org/10.1093/gigascience/giac025. Data available at https://figshare.com/s/ef864956064b39a48868. Press release https://www.eurekalert.org/news-releases/947790. Blog http://gigasciencejournal.com/blog/honeyeater-genome.
56. Pavlova A, Harrisson KA, Turakulov RI, Lee YP, Ingram B, Gilligan D, Sunnucks P, Gan HM. (2022) Labile sex chromosomes in the Australian freshwater fish family Percichthyidae. Molecular Ecology Resources, 22, 1639-1655. https://doi.org/10.1111/1755-0998.13569. Authorea preprint https://doi.org/10.22541/au.162696809.95212733/v1. Data available at https://doi.org/10.26180/5ea1736cc3553 and https://doi.org/10.26180/13551713
55. Robledo-Ruiz D, Pavlova A, Clarke R., Magrath MJ, Harrisson KA, Quin B, Gan HM, Low G, Sunnucks P. (2022) A novel framework for evaluating in-situ breeding management strategies in endangered populations. Molecular Ecology Resources, 22, 239-253. https://doi.org/10.1111/1755-0998.13476. Data available at https://doi.org/10.26180/13193465
54. Zilko JP, Harley D, Pavlova A, Sunnucks P. (2021) Applying population viability analysis to inform genetic rescue that preserves locally unique genetic variation in a critically endangered mammal. Diversity, 13, 382 https://doi.org/10.3390/d13080382. Data available at https://doi.org/10.26180/15019797
53. Radford JQ, Amos JN, Harrisson KA, Sunnucks P, and Pavlova A. (2021) Functional connectivity and population persistence in woodland birds: Insights for management from a multi-species landscape genetics study. Emu - Austral Ornithology, 121,147-159. https://doi.org/10.1080/01584197.2021.1903331.
52. Rodger YS, Pavlova A, Sinclair S, Pickup M, Sunnucks P. (2021) Evolutionary history and genetic connectivity across highly fragmented populations of an endangered daisy. Heredity, 126, 846–858. https://doi.org/10.1038/s41437-021-00413-0. Data available at https://doi.org/10.26180/5ea1603edd3a1.
51. Koch RE, Buchanan KL, Casagrande S, Crino O, Dowling DK, Hill GE, Hood WR, McKenzie M, Mariette MM, Noble DWA, Pavlova A, Seebacher F, Sunnucks P, Udino E, White CR, Salin K, Stier A. (2021) Integrating mitochondrial aerobic metabolism into ecology and evolution. Trends in Ecology and Evolution, 36, 321-332. https://doi.org/10.1016/j.tree.2020.12.006
50. Lutz M, Tonkin Z, Yen JDL, Johnson G, Ingram B, Kearns J, Lyon J, Sunnucks P, Chapple DG, Pavlova A. (2021) Using multiple sources during reintroduction of a locally extinct population benefits survival and reproduction of an endangered freshwater fish. Evolutionary Applications, 14, 950-964. https://doi.org/10.1111/eva.13173. Data available at https://doi.org/10.26180/5ea1736cc3553
49. Zilko JP, Harley D, Hansen B, Pavlova A, Sunnucks P. (2020) Accounting for cryptic population structure enhances detection of inbreeding depression with genomic inbreeding coefficients: an example from a critically endangered marsupial. Molecular Ecology, 29, 2978–2993. https://doi.org/10.1111/mec.15540. Data available at https://doi.org/10.26180/5ef6ec4550f3b
48. Gan HM, Falk S, Morales H, Austin C, Sunnucks P, Pavlova A. (2019) Genomic evidence of neo-sex chromosomes in the Eastern Yellow Robin. GigaScience, 8, 1-10. https://doi.org/10.1093/gigascience/giz111. Supplementary material http://dx.doi.org/10.5524/100639. Blog http://gigasciencejournal.com/blog/robin-sex-chromosomes/
47. Harrisson KA, Magrath, MJL, Yen JDL, Pavlova A, Murray N, Quin B, Menkhorst P, Miller KA, Cartwright K, Sunnucks P. (2019) Lifetime fitness costs of inbreeding and being inbred in a critically endangered bird. Current Biology, 29, 2711–2717. https://doi.org/10.1016/j.cub.2019.06.064.
46. Lamb A, Sunnucks P, Gonçalves Da Silva A, Joseph L, Pavlova A. (2019) Pleistocene-dated biogeographic barriers drove divergence within the Australo-Papuan region in a sex-specific way: an example in a widespread Australian songbird. Heredity, 123, 608–621. https://doi.org/10.1038/s41437-019-0206-2
45. Morales HE, Pavlova A, Amos N, Major R, Killian A, Greening C, Sunnucks P. (2018) Concordant divergence of mitogenomes and a mitonuclear gene cluster in bird lineages inhabiting different climates. Nature Ecology and Evolution, 2, 1258–1267. http://dx.doi.org/10.1038/s41559-018-0606-3; bioRxiv preprint first posted online 20/12/2016 doi: https://www.biorxiv.org/content/early/2017/06/12/095596.
44. Coleman R, Gauffre B, Pavlova A, Beheregaray LB, Kearns J, Lyon J, Sasaki M, Leblois R, Sgro CM, Sunnucks P. (2018) Artificial barriers prevent genetic recovery of small isolated populations of a low mobility freshwater fish. Heredity, 120, 515–532. https://doi.org/10.1038/s41437-017-0008-3. View the paper here http://rdcu.be/ExoC.
43. Goretskaia M, Beme IR, Popova DV, Amos JN, Buchanan KL, Sunnucks P, Pavlova A. (2018) Song parameters of the Fuscous Honeyeater Lichenostomus fuscus correlate with habitat characteristics in fragmented landscapes. Journal of Avian Biology, 49, e01493. https://doi.org/10.1111/jav.01493.
42. Lamb AM, Gan HM, Greening C, Joseph L, Lee YP, Morán Ordóñez A, Sunnucks P, Pavlova A. (2018) Climate-driven mitochondrial selection: a test in Australian songbirds. Molecular Ecology, 27, 898–918. https://doi.org/10.1111/mec.14488. Data are available at Dryad https://doi.org/10.5061/dryad.6fb64.
41. Krzeminska U, Morales HE, Greening C, Nyári ÁS, Wilson R, Song BK, Austin CM, Sunnucks P, Pavlova A, Rahman S. (2018) Population mitogenomics provides insights into evolutionary history, source of invasions and diversifying selection in the house crow (Corvus splendens). Heredity, 120, 296–309. https://doi.org/10.1038/s41437-017-0020-7.
40. Harrisson K, Amish SJ, Pavlova A, Narum SR, Telonis-Scott M, Rourke ML, Lyon J, Tonkin Z, Gilligan D, Ingram B, Lintermans M, Gan HM, Austin CM, Luikart G, Sunnucks P (2017) Signatures of polygenic adaptation associated with climate across the range of a threatened fish species with high genetic connectivity. Molecular Ecology, 26, 6253–6269. https://doi.org/10.1111/mec.14368. Data are available at Dryad https://doi.org/10.5061/dryad.57m0f and Monash Figshare https://doi.org/10.4225/03/59c3343bae613.
39. Austin CM, Tan MH, Harrisson KA, Lee YP, Croft LJ, Sunnucks P, Pavlova A, Gan HM (2017) De novo genome assembly and annotation of Australia's largest freshwater fish, the Murray cod (Maccullochella peelii), from Illumina and Nanopore sequencing read. GigaScience, 6, 1–6. https://doi.org/10.1093/gigascience/gix063. Dataset is available at http://gigadb.org/dataset/100329
38. Razeng E, Smith AE, Harrisson KA, Pavlova A, Nguyen T, Pinder A, Suter P, Webb J, Gardner MG, Brim Box J, Thompson R, Davis JA, Sunnucks P. (2017). Evolutionary divergence in freshwater insects with contrasting dispersal capacity, across a sea of desert. Freshwater Biology, 62, 1443–1459. http://dx.doi.org/10.1111/fwb.12959.
37. Pavlova A, Beheregaray L, Coleman R, Gilligan D, Harrisson KA, Ingram B, Kearns J, Lamb AM, Lintermans M, Lyon J, Nguyen TTT, Sasaki M, Tonkin Z, Yen JDL, Sunnucks P (2017) Severe consequences of habitat fragmentation on genetic diversity of an endangered Australian freshwater fish: a call for assisted gene flow. Evolutionary applications, 10, 531–550. http://dx.doi.org/10.1111/eva.12484.
36. Morales H, Sunnucks P, Joseph L, Pavlova A (2017). Perpendicular axes of differentiation generated by mitochondrial introgression. Molecular Ecology, 26, 3241–3255, http://dx.doi.org/10.1111/mec.14114. Pre-publication bioRxiv preprint first posted online 1/09/2016. http://dx.doi.org/10.1101/072942.
35. Sunnucks P, Morales HE, Lamb AM, Pavlova A, Greening C (2017) Integrative approaches for studying mitochondrial and nuclear genome co-evolution in oxidative phosphorylation. Invited article. Frontiers in Genetics 8, 25, https://doi.org/10.3389/fgene.2017.00025, http://journal.frontiersin.org/article/10.3389/fgene.2017.00025/full.
34. Pavlova A, Gan HM, Lee YP, Austin CM, Gilligan DM, Lintermans M, Sunnucks P (2017). Purifying selection and genetic drift shaped Pleistocene evolution of the mitochondrial genome in an endangered Australian freshwater fish. Heredity, 118, 466–476, http://dx.doi.org/10.1038/hdy.2016.120.
33. Morales HE, Pavlova A, Sunnucks P, Major R, Amos JN, Wang B, Joseph L, Lemmon AR, Delhey K. (2017). Neutral and selective drivers of colour evolution in a widespread Australian passerine. Journal of Biogeography, 44, 522–536, http://dx.doi.org/10.1111/jbi.12942
32. Balasubramaniam S, Mulder RA, Harrisson KA, Sunnucks P, Pavlova A, Melville J. (2017). MHC class II β exon 2 variation in pardalotes (Pardalotidae) is shaped by selection, recombination and gene conversion. Immunogenetics, 69, 101-111, http://dx.doi.org/10.1007/s00251-016-0953-7.[AP1]
31. Harrisson KA, Yen JDL, Pavlova A, Rourke ML, Gilligan DM, Ingram B, Lyon J, Tonkin Z, Sunnucks P (2016) Identifying environmental correlates of intraspecific genetic variation. Heredity, 117, 155-164, http://dx.doi.org/10.1038/hdy.2016.37.
30. Balasubramaniam S, Bray RD, Mulder RA, Sunnucks P, Pavlova A, Melville J (2016) New data from basal Australian songbird lineages show that complex structure of MHC class II β genes has early evolutionary origins within passerines. BMC Evolutionary Biology, 16, 112, http://dx.doi.org/10.1186/s12862-016-0681-5
29. Harrisson KA, Pavlova A, Gan HM, Lee YP, Austin CM, Sunnucks P (2016) Pleistocene divergence across a mountain range and the influence of selection on mitogenome evolution in threatened Australian freshwater cod species. Heredity, 116, 506-515, http://dx.doi.org/10.1038/hdy.2016.8.
28. Harrisson KA, Pavlova A, Gonçalves Da Silva A, Rose R, Bull JJ, Lancaster M, Murray N, Quin B, Menkhorst P, Magrath MJL, Sunnucks P. (2016) Scope for genetic rescue of an endangered subspecies though re-establishing natural gene flow with another subspecies. Molecular Ecology, 25, 1242–1258, http://dx.doi.org/10.1111/mec.13547.
27. Kvistad L, Ingwersen D, Pavlova A, Bull J, Sunnucks P (2015). Very low population structure in a highly mobile and wide-ranging endangered bird species. PLoS ONE, 10: e0143746, http://dx.doi.org/10.1371/journal.pone.0143746.
26. Murphy AL, Pavlova A, Thompson R, Davis J, Sunnucks P (2015). Swimming through sand: connectivity of aquatic fauna in deserts. Ecology and Evolution, 5: 5252–5264, http://dx.doi.org/10.1002/ece3.1741
25. Morán-Ordóñez A, Pavlova A, Pinder A, Sim L, Sunnucks P, Thompson RM, Davis J (2015) Aquatic communities in arid landscapes: local conditions, dispersal-traits and landscape configuration determine local biodiversity. Diversity and Distributions, 21:1230-124, http://dx.doi.org/10.1111/ddi.12342
24. Morales H, Pavlova A, Joseph L, Sunnucks P. (2015) Positive and purifying selection in mitochondrial genomes of a bird with mitonuclear discordance. Molecular Ecology, 24, 2820–2837, http://dx.doi.org/10.1111/mec.13203.
23. Harrisson KA, Pavlova A, Telonis-Scott M, Sunnucks P. (2014) Using genomics to characterize evolutionary potential for conservation of wild populations. Evolutionary Applications, 7, 1008-1025, http://dx.doi.org/10.1111/eva.12149
22. Pavlova A, Selwood P, Harrisson KA, Murray N, Quin B, Menkhorst P, Smales I, Sunnucks P. (2014) Integrating phylogeography and morphometrics to assess conservation merits and inform conservation strategies for an endangered subspecies of a common bird species. Biological Conservation, 174, 136–146, http://dx.doi.org/10.1016/j.biocon.2014.04.005
21. Amos JN, Harrisson KA, Radford JQ, White M, Newell G, Mac Nally R, Sunnucks P, Pavlova A. (2014) Species- and sex-specific connectivity effects of habitat fragmentation in a suite of woodland birds. Ecology, 95, 1556–1568, http://dx.doi.org/10.1890/13-1328.1
20. Harrisson KA, Pavlova A, Amos N, Radford J, Sunnucks P. (2014) Does reduced mobility through fragmented landscapes explain patch extinction patterns for three honeyeaters? Journal of Animal Ecology, 83: 616–627. http://dx.doi.org/10.1111/1365-2656.12172
19. Balasubramaniam S, Mulder R, Sunnucks P, Pavlova A, Melville J. (2013) Prevalence and diversity of avian haematozoa in three Australian passerine species in fragmented habitats. Emu, 113, 353–358. http://dx.doi.org/10.1071/MU13012
18. Davis J, Pavlova A, Thompson R, Sunnucks P (2013). Evolutionary refugia and ecological refuges: key concepts for conserving Australian arid zone freshwater biodiversity under climate change. Global Change Biology 19, 1970–1984. http://dx.doi.org/10.1111/gcb.12203
17. Pavlova A, Amos JN, Joseph L, Loynes K, Austin JJ, Keogh JS, Stone G, Nicholls JA, Sunnucks P (2013) Perched at the mito-nuclear crossroads: divergent mitochondrial lineages correlate with environment in the face of ongoing nuclear gene flow in an Australian bird. Evolution, 67, 3412–3428. http://dx.doi.org/10.1111/evo.12107.
16. Amos JN, Balasubramaniam S, Grootendorst L, Harrisson KA, Lill A, Mac Nally R, Pavlova A, Radford JQ, Takeuchi N, Thomson JR, and Sunnucks P (2013) Little evidence that individual condition, stress indicators, homozygosity or sex ratio relate to landscape or habitat attributes in declining woodland birds. Journal of Avian Biology, 44, 45-54. http://dx.doi.org/10.1111/j.1600-048X.2012.05746.x
15. Harrisson KA, Pavlova A, Amos JN, Takeuchi N, Lill A, Radford JQ, Sunnucks P (2013) Disrupted fine-scale population processes in fragmented landscapes despite large-scale genetic connectivity for a widespread and common cooperative breeder: the superb fairy-wren (Malurus cyaneus). Journal of Animal Ecology, 82, 322-333. http://dx.doi.org/10.1111/1365-2656.12007.
14. Harrisson KA, Pavlova A, Amos JN, Takeuchi N, Lill A, Radford JQ, Sunnucks P (2012) Fine-scale effects of habitat fragmentation despite large-scale gene flow for some regionally declining woodland bird species. Landscape Ecology, 27, 813-827. http://dx.doi.org/10.1007/s10980-012-9743-2.
13. Amos JN, Bennett AF, Mac Nally R, Newell G, Pavlova A, Radford JQ, Thomson JR, White M, Sunnucks P (2012) Predicting landscape-genetic consequences of habitat loss, fragmentation and mobility for multiple species of woodland birds. PLoS ONE, 7(2) e30888. http://dx.doi.org/10.1371/journal.pone.0030888.
12. Pavlova A, Amos JN, Goretskaja MI, Beme IR, Buchanan KL, Takeuchi N, Radford JQ and Sunnucks P (2012) Genes and song: genetic and social connections in fragmented habitat in a woodland bird with limited dispersal. Ecology, 93, 1717-1727. http://dx.doi.org/10.1890/11-1891.1.
11. Pavlova A, Walker FM, van der Ree R, Cesarini S and Taylor AC (2010) Threatened populations of the Australian squirrel glider (Petaurus norfolcensis) show evidence of evolutionary distinctiveness on a Late Pleistocene timescale. Conservation Genetics, 11, 2393–2407. http://dx.doi.org/10.1007/s10592-010-0125-5.
10. Norgate M, Chamings J, Pavlova A, Bull JK, Murray ND, and Sunnucks P (2009) Mitochondrial DNA Indicates Late Pleistocene Divergence of Populations of Heteronympha merope, an Emerging Model in Environmental Change Biology. PLoS ONE 4, e7950. http://dx.doi.org/10.1371/journal.pone.0007950.
9. Zink RM, Pavlova A, Drovetski SV, Wink M, and Rohwer S (2009) Taxonomic status and evolutionary history of the Saxicola torquata complex. Molecular Phylogenetics and Evolution, 52, 769-773. http://dx.doi.org/10.1016/j.ympev.2009.05.016.
8. Zink R, Pavlova A, Drovetski SV and Rohwer S (2008) Mitochondrial phylogeographies of five widespread Eurasian birds. Journal of Ornithology, 149, 399-413. http://dx.doi.org/10.1007/s10336-008-0276-z.
7. Pavlova A, Zink RM, Drovetski SV, Rohwer S (2008) Pleistocene evolution of closely related sand martins Riparia riparia and R. diluta. Molecular Phylogenetics and Evolution, 48, 61-73. http://dx.doi.org/10.1016/j.ympev.2008.03.030.
6. Sunnucks P, Blacket MJ, Taylor JM, Sands CJ, Ciavaglia SA, Garrick R, Tait NN, Rowell DM, Pavlova A (2006) A tale of two flatties: different responses of two terrestrial flatworms to past environmental climatic fluctuations at Tallaganda in montane south-eastern Australia. Molecular Ecology, 15, 4513-4531. http://dx.doi.org/10.1111/j.1365-294X.2006.03107.x.
5. Pavlova A, Rohwer S, Drovetski SV, Zink RM (2006) Different Post-Pleistocene Histories of Eurasian Parids. Journal of Heredity, 97, 389-402. http://dx.doi.org/10.1093/jhered/esl011.
4. Zink RM, Pavlova A, Rohwer S, Drovetski SV (2006) Barn swallows before barns: population histories and intercontinental colonization. Proceedings of the Royal Society of London, Series B 273, 1245-1251. http://dx.doi.org/10.1098/rspb.2005.3414.
3. Pavlova A, Zink RM, Rohwer S, Koblik EA, Red'kin YA, Fadeev IV, and Nesterov EV (2005) Mitochondrial DNA and plumage evolution in white wagtails. Journal of Avian Biology 36, 322-336. http://dx.doi.org/10.1111/j.0908-8857.2005.03373.x.
2. Pavlova A, Zink RM, Rohwer S (2005) Evolutionary history, population genetics and gene flow in the Common Rosefinch (Carpodacus erythrinus). Molecular Phylogenetics and Evolution 36, 669-681. http://dx.doi.org/10.1016/j.ympev.2009.05.016.
1. Pavlova A, Zink RM, Drovetski SV, Red’kin YA, and Rohwer S (2003) Phylogeographic patterns in Motacilla flava and M. citreola: species limits and population history. The Auk 120, 744-758. http://dx.doi.org/10.1642/0004-8038(2003)120[0744:PPIMFA]2.0.CO;2.
Books:
Davis J, Sunnucks P, Thompson R, Sim L, Pavlova A, Morán-Ordóñez A, Brim Box J, McBurnie G, Pinder A, Choy S, McNeil D, Hughes J, Sheldon F, Timms B (2013) Building the climate resilience of arid zone freshwater biota. National Climate Change Adaptation Research Facility, Gold Coast, 30pp. ISBN: 978-1-925039-82-5. NCCARF Publication 111/13.
Davis J, Sunnucks P, Thompson R, Sim L, Pavlova A, Morán-Ordóñez A, Brim Box J, McBurnie G, Pinder A, Choy S, McNeil D, Hughes J, Sheldon F, Timms B (2013). Climate change adaptation guidelines for arid zone aquatic ecosystems and freshwater biodiversity, National Climate Change Adaptation Research Facility, Gold Coast, 51pp. ISBN: 978-1-925039-83-2. NCCARF Publication 112/13
Book Reviews:
Pavlova A (2009) Book Review. Handbook of the Birds of the World. Volume 12, Picathartes to Tits and Chickadees. Edited by J. del Hoyo, A. Elliott, D. A. Christie, Lynx Edicions, Barcelona, Spain, 2007, 815pp, ISBN: 84-96553-42-6 (Hardback). Invited review. Hornero 24 (1), 61–62.
Photo by Nevil Amos