Scientific publications represent a research group’s contribution to the field.  Below you will find a list of studies we have been involved with that have been peer-reviewed and published in scholarly journals.

For the most up-to-date list, check John’s Google Scholar profile.

If you have any difficulty downloading a paper, please contact John directly to secure a copy (jparkinson [at] usf [dot] edu).

Nature Reviews: Earth & Environment   CORAL Magazine   

       

2023

Building consensus around the assessment and interpretation of Symbiodiniaceae diversity

(2023) PeerJ e15023
doi: 10.7717/peerj.15023
Davies SW, Gamache MH, Howe-Kerr LI, Kriefall NG, Workshop Participants, Correa AMS, Parkinson JE

Press Release

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2022

Variance matters: Individual differences and their consequences for natural selection within and among coral holobionts

(2022) Frontiers in Microbiology 10:977844
doi: 10.3389/fevo.2022.977844
Parkinson JE, Tang SL, Denis V

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2021

Census of heat tolerance among Florida's threatened staghorn corals finds resilient individuals throughout existing nursery populations

(2021) Proceedings of the Royal Society B 288:20211613
doi: 10.1098/rspb.2021.1613
Cunning R, Parker KE, Johnson-Sapp K, Karp RF, Wen AD, Williamson OM, Bartels E, D’Alessandro M, Gilliam DS, Hanson G, Levy J, Lirman D, Maxwell K, Million WC, Moulding AL, Moura A, Muller EM, Nedimyer K, Reckenbeil B, van Hooidonk R, Dahlgren C, Kenkel C, Parkinson JE, Baker AC

USF Press Release

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Extending the natural adaptive capacity of coral holobionts

(2021) Nature Reviews: Earth & Environment 2:747-762
doi: 10.1038/s43017-021-00214-3
Voolstra CR, Suggett DJ, Peixoto RS, Parkinson JE, Quigley KM, Silveira CB, Sweet M, Muller EM, Barshis DJ, Bourne DG, Aranda M

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USF Press Release

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Solar symbionts: Casting new light on the ancient partnership of reef-building corals and the micro-algae known as zooxanthellae, family Symbiodiniaceae

(2021) CORAL Magazine 
Parkinson JE, LaJeunesse TC

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Popular Science
(Technically not peer reviewed, but lots of good info and beautiful photos!)

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Consensus guidelines for advancing coral holobiont genome and specimen voucher deposition

(2021) Frontiers in Marine Science 8:701784
doi: 10.3389/fmars.2021.701784
Voolstra CR, Quigley K, Davies SW, Parkinson JE, Peixoto RS, Aranda M, Baker AC, Barno A, Barshis DJ, Benzoni F, Bonito V, Bourne D, Buitrago-Lopez C, Bridge T, Chan CX, Combosch DJ, Craggs J, Frommlet JC, Herrera S, Quattrini AM, Rothig T, Reimer JD, Rubio-Portillo E, Suggett D, Villela H, Ziegler M, Sweet M

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Zoantharian endosymbiont community dynamics during a stress event

(2021) Frontiers in Microbiology 12:674026
doi: 10.3389/fmicb.2021.674026
Fujiwara Y, Kawamura I, Reimer JD, Parkinson JE

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2020

Characterization of a thermally tolerant Orbicella faveolata reef in Abaco, The Bahamas

(2020) Coral Reefs 39:675-685
doi: 10.1007/s00338-020-01948-0
Parker KE, Ward JO, Eggleston EM, Fedorov E, Parkinson JE, Dahlgren CP, Cunning R

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Host and symbiont cell cycle coordination is mediated by symbiotic state, nutrition, and partner identity in a model cnidarian-dinoflagellate symbiosis

(2020) mBio 11:e02626-19
doi: 10.1128/mBio.02626-19
Tivey TR, Parkinson JE, Weis VM

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Unique combinations of coral host and algal symbiont genotypes reflect intraspecific variation in heat stress responses among colonies of the reef-building coral, Montipora capitata

(2020) Marine Biology 167:23
doi: 10.1007/s00227-019-3632-z
Kavousi J, Denis V, Sharp V, Reimer JD, Nakamura T, Parkinson JE

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N-linked surface glycan biosynthesis, composition, inhibition, and function in cnidarian-dinoflagellate symbioses

(2020) Microbial Ecology
 80:223-236
doi: 10.1007/s00248-020-01487-9
Tivey TR, Parkinson JE, Mandelare PE, Adpressa DA, Peng W, Dong X, Mechref Y, Weis VM, Loesgen S

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Molecular tools for coral reef restoration: beyond biomarker discovery

(2020) Conservation Letters 13:e12687
doi: 10.1111/conl.12687
Parkinson JE, Baker AC, Baums IB, Davies SW, Grottoli AG, Kitchen SA, Matz MV, Miller MW, Shantz AA, Kenkel CD

Open Access
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2019

Considerations for maximizing the adaptive potential of restored coral populations in the western Atlantic

(2019) Ecological Applications 29:e01978
doi: 10.1002/eap.1978
Baums IB, Baker AC, Davies SW, Grottoli AG, Kenkel CD, Kitchen SA, Kuffner IB, LaJeunesse TC, Matz MV, Miller MW, Parkinson JE, Shantz AA

Open Access
Named in ECO Magazine’s Top 15 Coral Reef Research Contributions

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Inter-partner specificity limits the acquisition of thermotolerant symbionts in a model cnidarian-dinoflagellate symbiosis

The ISME Journal 13:2489-2499
doi: 10.1038/s41396-019-0429-5
Gabay Y, Parkinson JE, Wilkinson SP, Weis VM, Davy SK

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2018

Systematic revision of Symbiodiniaceae highlights the antiquity and diversity of coral endosymbionts

(2018) Current Biology 28:2570-2580
doi: 10.1016/j.cub.2018.07.008
LaJeunesse TC, Parkinson JE, Gabrielson PW, Jeong HJ, Reimer JD, Voolstra CR, Santos SR

Open Access
Mini Review in Current Biology Dispatches
Top Cited Current Biology Paper (2018)
Web of Science Highly Cited and Hot Paper
Recommended by F1000Prime
Media Coverage: BBC News, Cosmos Magazine, Smithsonian Magazine, Nature: Middle East

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Subtle differences in symbiont cell surface glycan profiles do not explain species-specific colonization rates in a model cnidarian-algal symbiosis

(2018) Frontiers in Microbiology 9:842
doi: 10.3389/fmicb.2018.00842
Parkinson JE, Tivey TR, Mandelare PE, Adpressa DA, Loesgen S, Weis VM

Open Access

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Extensive transcriptional variation poses a challenge to thermal stress biomarker development for endangered corals

(2018) Molecular Ecology 27:1103-1119
doi: 10.1111/mec.14517
Parkinson JE, Bartels E, Devlin-Durante MK, Lustic C, Nedimyer K, Schopmeyer S, Lirman D, LaJeunesse TC, Baums IB

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2017

A preliminary survey of zoantharian endosymbionts shows high genetic variation over small geographic scales on Okinawa-jima Island, Japan

(2017) PeerJ 5:e3740
doi: 10.7717/peerj.3740
Noda H, Parkinson JE, Yang SY, Reimer J

Open Access

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Evidence for coral range expansion accompanied by reduced symbiont diversity

(2017) Coral Reefs 36:981-985
doi: 10.1007/s00338-017-1589-2
Gupstra CGB, Coma R, Ribes M, Leydet KB, Parkinson JE, McDonald K, Catlla M, Voolstra CR, Hellberg ME, Coffroth MA

Open Access

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Latitudinal variation in the symbiotic dinoflagellate Symbiodinium of the common reef zoantharian Palythoa tuberculosa on the Saudi Arabian coast of the Red Sea

(2017) Journal of Biogeography 44:661-673
doi: 10.1111/jbi.12795
Reimer JD, Herrera M, Gatins R, Roberts MB, Parkinson JE, Berumen ML

Open Access

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2016

Combined ocean acidification and low temperature stressors cause coral mortality

(2016) Coral Reefs  35:903-907
doi: 10.1007/s00338-016-1459-3
Kavousi J, Parkinson JE, Nakamura T

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A citizen science approach to monitoring bleaching in the zoantharian Palythoa tuberculosa

(2016) PeerJ 4:e1815
doi: 10.7717/peerj.1815
Parkinson JE, Yang SY, Kawamura I, Byron G, Todd PA, Reimer JD

Open Access

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Gene expression variation resolves species and individual strains among coral-associated dinoflagellates within the genus Symbiodinium

(2016) Genome Biology and Evolution 8:665-680
doi: 10.1093/gbe/evw019
Parkinson JE, Baumgarten S, Michell CT, Baums IB, LaJeunesse TC, Voolstra CR

Open Access
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2015

Intraspecific diversity among partners drives functional variation in coral symbioses

(2015) Scientific Reports 5:15667
doi: 10.1038/srep15667
Parkinson JE, Banaszak AT, Altman NS, LaJeunesse TC, Baums IB

Open Access

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New species of Clade B Symbiodinium (Dinophyceae) from the greater Caribbean belong to different functional guilds: S. aenigmaticum sp. nov., S. antillogorgium sp. nov., S. endomadracis sp. nov., and S. pseudominutum sp. nov.

(2015) Journal of Phycology 51:850-858
doi: 10.1111/jpy.12340
Parkinson JE, Coffroth MA, LaJeunesse TC

Open Access
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2014

The extended phenotypes of marine symbioses: ecological and evolutionary consequences of intraspecific genetic diversity in coral-algal associations

(2014) Frontiers in Microbiology: Microbial Symbioses 5:445
doi: 10.3389/fmicb.2014.00445
Parkinson JE, Baums IB

Open Access

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Ecologically differentiated, thermally tolerant endosymbionts in the dinoflagellate genus Symbiodinium (Dinophyceae) Clade D are different species

(2014) Phycologia 53:305-319
doi: 10.2216/13-186.1
LaJeunesse TC, Wham D, Pettay DT, Parkinson JE, Keshavmurthy S, Chen CA

Open Access
Cover Feature
Web of Science Highly Cited Paper
Tyge Christenson Prize (Best Paper Published in Phycologia in 2014)

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Assessing techniques to improve early post-settlement survivorship of corals for in situ restoration

(2014) Bulletin of Marine Science 90:651-654
doi: 10.5343/bms.2013.1020
Cooper WT, Lirman D, Porter M, Parkinson JE, Herlan J, McManus JW

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2013

Genotypic variation influences reproductive success and thermal stress tolerance in the reef building coral Acropora palmata

(2013) Coral Reefs 32:703-717
doi: 10.1007/s00338-013-1012-6
Baums IB, Devlin-Durante MK, Polato NR, Xu D, Giri S, Altman NS, Ruiz D, Parkinson JE, Boulay JN

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2012

A genetics-based description of Symbiodinium minutum sp. nov. and S. psygmophilum sp. nov. (Dinophyceae), two dinoflagellates symbiotic with Cnidaria

(2012) Journal of Phycology 48:1380-1391
doi: 10.1111/j.1529-8817.2012.01217.x
LaJeunesse TC, Parkinson JE, Reimer JD

Corrigendum (Corrects Primer Sequences in Table 2)
Web of Science Highly Cited Paper

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