CT-PIRE publications to date

Ackiss, A, Pardede, S, Crandall, ED, Ablan-Lagman, MCA, Ambariyanto, Romera, N, Barber, PH, Carpenter ,KE (2013). Pronounced genetic structure in a highly mobile coral reef fish, Caesio cuning, in the Coral Triangle. Marine Ecology Progress Series. 480: 185-197.

Barber, PH, Ablan-Lagman, MCA, Ambariyanto, Berlinck, RGS, Cahyani, D, Crandall, ED, Ravago-Gotanco, R, Juinio-Meñez, MA, Mahardika, IGN, Shanker, K, Starger, CJ, Toha, AHA, Anggoro, AW & Willette, DA. “Advancing biodiversity research in developing countries: the need for changing paradigms,” Bulletin of Marine Science, v.90, 2014, p. 187.

Berger M, Selkoe KA, Treml E, Barber PH, et al.. “Evolving coral reef conservation with genetic information,” Bulletin of Marine Science, v.90, 2014, p. 159.

Berger M, Selkoe, K, Treml, E, Barber PH, Ablan M, Ambariyanto, Berlinck R, Cahyani D, Crandall E, Gotanco R, Junio-Menez A, Mahardika N, Shankar K, Starger C, Toha H, Wahyu A, and Willette DA (2014). Advancing biodiversity research in developing countries: the need for a new paradigm. Bulletin of Marine Science. 90 (1) 187-210.

Borsa, P., Hsiao, DR, Carpenter, KE, Chen, WJM (2013) Cranial morphometrics and mitochondrial DNA sequences distinguish cryptic species of the longface emperor (Lethrinus olivaceus), an emblematic fish of Indo-West Pacific coral reefs. Comptes rendus biologies 336 (10), 505-514.

Carpenter KE, Barber, PH, Crandall, ED, Ablan-Lagman, MA, Ambariyanto, G. Ngurah Mahardika, Manjaji-Matsumoto, BM, Juinio‐Meñez, MA, Santos, MD, Starger, CJ, Toha, AHA (2010) Comparative Phylogeography of the Coral Triangle and Implications for Marine Management. Journal of Marine Biology. 14 pp. doi:10.1155/2011/396982

Casilagan, ILN, Juinio-Meñez, MA, and Crandall ED. (2013) Genetic diversity, population structure, and demographic history of exploited sea urchin populations (Tripneustes gratilla) in the Philippines. Journal of Experimental Marine Biology and Ecology. 449 (2013) 284-293.

Crandall ED, Treml EA, Barber, PH (2012) Coalescent and biophysical models of stepping- stone gene flow in neritid snails. Molecular Ecology. 21(22): 5579-98.

Crandall, ED, Sbrocco, EJ, DeBoer, TS, Barber, PH, and Carpenter, KE (2012). Expansion dating: calibrating molecular clocks in marine species from expansions onto the Sunda Shelf following the Last Glacial Maximum. Molecular Biology & Evolution. 21 (22): 5579-98.

Crandall, ED, Treml, EA, Liggins, L, Gleeson, L, Yasuda, N, Barber, PH, Wörheide, G & Riginos, C. “Return of the ghosts of dispersal past: historical spread and contemporary gene flow in the blue sea star Linckia laevigata,” Bulletin of Marine Science, v.90, 2014, p. 399.

DeBoer, TS, Barber, PH (2010) Isolation and characterization of 9 polymorphic microsatellite markers for the endangered boring giant clam (Tridacna crocea) and cross-priming testing in three other Tridacnid species. Conservation Genetics Resources 2 (1), 353-356

DeBoer, TS, Naguit, MR, Erdmann, MV, Ablan, MCA , Ambariyanto, Carpenter, KE, Toha, HA, Barber, PH. “Concordance between phylogeographic and biogeographic boundaries in the Coral Triangle: conservation implications based on comparative analyses of multiple giant clam species,” Bulletin of Marine Science, v.90, 2014, p. 277.

DeBoer, TS, Naguit, MR, Erdmann, MV, Ablan, MCA, Ambariyanto, Carpenter, KE, Toha, H , Barber, PH (2013). Concordant phylogenetic patterns inferred from mitochondrial and microsatellite DNA in the giant clam Tridacna crocea. Bulletin of Marine Science. 90 (1) : 301-329.
Hines AB, Willette DA, Carpenter KE, et al. Comparative phylogeography of the emperor snappers Lethrinus lentjan and Lethrinus harak (Lethrinidae: Percoidei) in the Coral Triangle. In Preparation

Jackson, AM, Ambariyanto, Erdmann, MV, Toha, AHA, Stevens, LA & Barber, PH. “Phylogeography of commercial tuna and mackerel in the Indonesian Archipelago,” Bulletin of Marine Science, v.90, 2014, p. 471.

Kool, JT, Moilanen, A & Treml, EA. “Population connectivity: recent advances and new perspectives,” Landscape Ecology, v.28, 2013, p. 165.

Maralit BA, Aguila RD, Ventolero MFH, Perez SKL, Willette DA, and Santos MD. (2013) Detection of mislabeled commercial fishery products in the Philippines using DNA barcodes and its implication to food traceability and safety, Journal of Food Control, 33: 119-125.

Raynal, JM, Crandall, ED, Barber, PH, Mahardika, GN, Ablan-Lagman, CA, and Carpenter KE. Basin isolation and oceanographic features influencing lineage divergence in the humbug damselfish (Dascyllus aruanus) in the Coral Triangle. Bulletin of Marine Science, 90 (1) 513-532

Sbrocco EJ, Chavarria K, Bertrand JF, Ablan-Lagman MC, Carpenter KE, Ambariyanto, Mahardika GN, Erdmann MV, Barber PH. Climatic niche divergence correlates with phylogeoraphic breaks and species boundaries in clownfish within the Coral Triangle. In Preparation

Sbrocco EJ, PH Barber. (2013) MARSPEC: ocean climate layers for marine spatial ecology. Ecology 94 (4): 979.

Sembiring A, Pertiwi NPD, Mahardini A, Wulandari R, et al.. “DNA barcoding reveals targeted fisheries for endangered sharks in Indonesia,” Fisheries Research, v.164, 2015, p. 130.

Sienes, PMQ, Willette, DA, Romena, LR, Alvior, CG, Estacion , JS (2014) Genetic diversity and the discovery of a putative cryptic species within a valued crab fishery, Portunus pelagicus (Linnaeus 1758), in the Philippines. Philippine Science Letters. 7(2): 317-323.

Stockwell, BL, WA Larson, RK Waples, RA Abesamis, LW Seeb and KE Carpenter. The application of genomics to inform conservation of a functionally important reef fish (Scarus niger) in the Coral Triangle. Conservation Genetics, in review.

Thomas Jr.,RC, Willette, DE, Carpenter, KE, Santos, MD. (2014) Hidden Diversity in Sardines: Genetic and Morphological Evidence for Cryptic Species in the Goldstripe Sardinella, Sardinella gibbosa (Bleeker, 1849). PLoS One. 9(1):719: 1-10.

Toha, HA, Barber, PH. (2014) Concordance between phylogeographic and biogeographic boundaries in the Coral Triangle: conservation implications based on comparative analyses of multiple giant clam species. Bulletin of Marine Science. 90 (1) 277-300

Treml EA, Halpin PN (2012) Marine population connectivity identifies ecological neighbors for conservation planning in the Coral Triangle. Conservation Letters. 5(6) 441-449.

Treml EA, Roberts J, Chao Y, Halpin P, Possingham HP & Riginos C. “Reproductive output and duration of the pelagic larval stage determine seascape-wide connectivity of marine populations,” Integrative and Comparative Biology, v.52, 2012, p. 525.

Treml, EA, Roberts, J. Halpin, PN, Possingham, HP, and Riginos, C (2015). The emergent geography of biophysical dispersal barriers across the Indo‐West Pacific. Diversity and Distributions, 21(4), 465-476.

Willette DA and Santos MD (2013) Correcting the widespread misidentifications of a highly abundant and commercially important sardine species Sardinella lemuru in the Philippines. Journal of Applied Ichthyology, 29: 881-885.

Willette DA, Carpenter KE, and Santos MD. (2013) Evolution of the freshwater sardinella, Sardinella tawilis (Clupeiformes: Clupeidae), in Lake Taal, Philippines and phylogeography of its sister-species, Sardinella hualiensis. Bulletin of Marine Science. 90, 455-470.

Willette DA, Chalifour J, Debrot AOD, Engel MS, et al.. “Continued expansion of the trans-Atlantic invasive marine angiosperm Halophila stipulacea in the Easter Caribbean,” Aquatic Botany, v.112, 2014, p. 98.

Willette DA, Iniguez A, Kupriyanova E, Starger CJ, Maralit B, Barber PH (2015) Phylogeography of the Christmas Tree worm Spironbranchus corniculatus (Annelida, Serpulidae) from the Coral Triangle, Australia and Fiji.

Willette DA, Santos MD, and Aragon MA. “First report of the Taiwan sardinella Sardinella hualiensis (Clupeiformes: Clupeidae) in the Philippines,” Journal of Fish Biology, v.79, 2011, p. 2087.

Willette, DA, Allendorf ,FW, Barber PH, Barshis DJ, Carpenter, KE, Crandall, E, Cresko, WA, Fernandez-Silva, I, Matz, MV, Meyer, M, Santos, MD, Seeb LW and Seeb JE. (2014) So, you want to use next-generation sequencing in marine systems? Bulletin of Marine Science. 90(1): 79-122.

Willette, DA, and Padin, JIM,. Identifying the biodiversity of marine jacks (Carangidae) in the freshwater Taal Lake, Philippines using mitochondrial DNA and phenotypic features. Journal of Applied Ichthyology (30) 3, 490-495

Willette, DA, Santos, MD, and Aragon, MA (2011) First report of the Taiwan sardinella Sardinella hualiensis (Clupeiformes: Clupeidae) in the Philippines. Journal of Fish Biology, 79(7): 2087-2094