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    Academic Journals

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• Strong horizontal and vertical connectivity in the coral Pocillopora verrucosa from Ludao, Taiwan, a small oceanic island.

  Authors:Stéphane de Palmas, Derek Soto, Ming-Jay Ho, Vianney Denis, and Chaolun Allen ChenFrom:PLoS ONE (Vol. 16, Issue 10) Peer-Reviewed

  Oct. 11, 20217,705 words Report 1580LMesophotic habitats could be sheltered from natural and anthropogenic disturbances and act as reproductive refuges, providing propagules to replenish shallower populations. Molecular markers can be used as proxies...

• Can resistant coral-Symbiodinium associations enable coral communities to survive climate change? A study of a site exposed to long-term hot water input

  Authors:Shashank Keshavmurthy, Pei-Jie Meng, Jih-Terng Wang, Chao-Yang Kuo, Sung-Yin Yang, Chia-Min Hsu, et al.From:PeerJ (Vol. 2) Peer-Reviewed

  Apr. 8, 201411,055 words Article 1560LAuthor(s): Shashank Keshavmurthy (1), Pei-Jie Meng (2,3), Jih-Terng Wang (4), Chao-Yang Kuo (1,5), Sung-Yin Yang (6), Chia-Min Hsu (1,7), Chai-Hsia Gan (1), Chang-Feng Dai (7), Chaolun Allen Chen (1,7,8) Introduction...

• Diverse responses of Symbiodinium types to menthol and DCMU treatment

  Authors:Jih-Terng Wang, Shashank Keshavmurthy, Tzu-Ying Chu, and Chaolun Allen ChenFrom:PeerJ (Vol. 5) Peer-Reviewed

  Oct. 2, 20175,644 words Report 1530LTo understand the mechanism of photosynthetic inhibition and generation of reactive oxygen species (ROS) in Symbiodinium types under stress, chemicals such as dichlorophenyl dimethylurea (DCMU) are widely used....

• Identification of Scleractinian Coral Recruits Using Fluorescent Censusing and DNA Barcoding Techniques

  Authors:Chia-Min Hsu, Stephane de Palmas, Chao-Yang Kuo, Vianney Denis, and Chaolun Allen ChenFrom:PLoS ONE (Vol. 9, Issue 9) Peer-Reviewed

  Sept. 11, 20147,311 words Article 1500LThe identification of coral recruits has been problematic due to a lack of definitive morphological characters being available for higher taxonomic resolution. In this study, we tested whether fluorescent detection of...

• Diversity and Distribution of Symbiodinium Associated with Seven Common Coral Species in the Chagos Archipelago, Central Indian Ocean

  Authors:Sung-Yin Yang, Shashank Keshavmurthy, David Obura, Charles R. C. Sheppard, Shakil Visram, and Chaolun Allen ChenFrom:PLoS ONE (Vol. 7, Issue 5) Peer-Reviewed

  May 2, 20125,829 words Article 1560LAuthor(s): Sung-Yin Yang 1 , Shashank Keshavmurthy 1 , David Obura 2 , 3 , Charles R. C. Sheppard 3 , Shakil Visram 1 , 2 , Chaolun Allen Chen 1 , 4 , * Introduction Mutualistic symbiosis between scleractinian...

• Massively parallel sequencing (MPS) assays for sequencing mitochondrial genomes: the phylogenomic implications for Acropora staghorn corals (Scleractinia; Acroporidae)

  Authors:Shang-Yin Vanson Liu, Chia-Ling Carynn Chan, Hernyi Justin Hsieh, Silvia Fontana, Carden C. Wallace, and Chaolun Allen ChenFrom:Marine Biology (Vol. 162, Issue 6) Peer-Reviewed

  June 20156,429 words Report 1420LBased on only a handful of mitochondrial and nuclear loci, the phylogenetic relationships within the genus Acropora have been unclear. However, with the new sequencing technology of massively parallel sequencing (MPS),...

• Conventional taxonomy obscures deep divergence between Pacific and Atlantic corals

  Authors:Hironobu Fukami, Ann F. Budd, Gustav Paulay, Antonio Sole-Cava, Chaolun Allen Chen, Kenji Iwao, et al.From:Nature (Vol. 427, Issue 6977) Peer-Reviewed

  Feb. 26, 20042,824 words Article 1550LAuthor(s): Hironobu Fukami [1, 2]; Ann F. Budd [3]; Gustav Paulay [4]; Antonio Solé-Cava [5]; Chaolun Allen Chen [6]; Kenji Iwao [7]; Nancy Knowlton (corresponding author) [1, 2] Only 17% of 111 reef-building coral...

• Structure of Benthic Communities along the Taiwan Latitudinal Gradient

  Authors:Lauriane Ribas-Deulofeu, Vianney Denis, Stephane De Palmas, Chao-Yang Kuo, Hernyi Justin Hsieh, and Chaolun Allen ChenFrom:PLoS ONE (Vol. 11, Issue 8) Peer-Reviewed

  Aug. 11, 20168,701 words Report 1510LThe distribution and the structure of benthic assemblages vary with latitude. However, few studies have described benthic communities along large latitudinal gradients, and patterns of variation are not fully...

• Coverage, Diversity, and Functionality of a High-Latitude Coral Community (Tatsukushi, Shikoku Island, Japan)

  Authors:Vianney Denis, Takuma Mezaki, Kouki Tanaka, Chao-Yang Kuo, Stephane De Palmas, Shashank Keshavmurthy, et al.From:PLoS ONE (Vol. 8, Issue 1) Peer-Reviewed

  Jan. 14, 20136,779 words Article 1540LBackground Seawater temperature is the main factor restricting shallow-water zooxanthellate coral reefs to low latitudes. As temperatures increase, coral species and perhaps reefs may move into higher-latitude...

• Physiological Outperformance at the Morphologically-Transformed Edge of the Cyanobacteriosponge Terpios hoshinota (Suberitidae: Hadromerida) when Confronting Opponent Corals

  Authors:Jih-Terng Wang, Chia-Min Hsu, Chao-Yang Kuo, Pei-Jie Meng, Shuh-Ji Kao, and Chaolun Allen ChenFrom:PLoS ONE (Vol. 10, Issue 6) Peer-Reviewed

  June 25, 20155,740 words Article 1600LTerpios hoshinota, an encrusting cyanosponge, is known as a strong substrate competitor of reef-building corals that kills encountered coral by overgrowth. Terpios outbreaks cause significant declines in living coral...

• Transcriptomic response in Acropora muricata under acute temperature stress follows preconditioned seasonal temperature fluctuations

  Authors:Sonny T. M. Lee, Shashank Keshavmurthy, Silvia Fontana, Mezaki Takuma, Wen-Hua Chou, and Chaolun Allen ChenFrom:BMC Research Notes (Vol. 11, Issue 1) Peer-Reviewed

  Feb. 9, 20183,270 words Report 1660LObjective Global climate change has resulted in the decline of health and condition of various coral reefs worldwide. Here, we describe expression profiles of Acropora muricata collected during opposing seasons in...

• Molecular assessment of Pocillopora verrucosa (Scleractinia; Pocilloporidae) distribution along a depth gradient in Ludao, Taiwan

  Authors:Stephane De Palmas, Derek Soto, Vianney Denis, Ming-Jay Ho, and Chaolun Allen ChenFrom:PeerJ (Vol. 6) Peer-Reviewed

  Oct. 25, 20186,148 words Report 1370LIt can be challenging to identify scleractinian corals from the genus Pocillopora Lamarck 1816 in the field because of their large range of inter- and intra-specific morphological variation that co-occur with changes in...

• Recurrent Disturbances and the Degradation of Hard Coral Communities in Taiwan

  Authors:Chao-Yang Kuo, Yeong Shyan Yuen, Pei-Jie Meng, Ping-Ho Ho, Jih-Terng Wang, Pi-Jen Liu, et al.From:PLoS ONE (Vol. 7, Issue 8) Peer-Reviewed

  Aug. 30, 20124,142 words Article 1470LAuthor(s): Chao-Yang Kuo 1 , 2 , Yeong Shyan Yuen 1 , 3 , Pei-Jie Meng 4 , 5 , Ping-Ho Ho 6 , Jih-Terng Wang 7 , Pi-Jen Liu 4 , 5 , Yang-Chi Chang 8 , Chang-Feng Dai 9 , Tung-Yung Fan 4 , 5 , Hsing-Juh Lin 10 , Andrew...

• Resurrecting a subgenus to genus: molecular phylogeny of Euphyllia and Fimbriaphyllia (order Scleractinia; family Euphyllidae; clade V)

  Authors:Katrina S. Luzon, Mei-Fang Lin, Ma. Carmen A. Ablan Lagman, Wilfredo Roehl Y. Licuanan, and Chaolun Allen ChenFrom:PeerJ (Vol. 5) Peer-Reviewed

  Dec. 4, 201710,214 words Report 1390LBackground The corallum is crucial in building coral reefs and in diagnosing systematic relationships in the order Scleractinia. However, molecular phylogenetic analyses revealed a paraphyly in a majority of...

• Specificity trumps flexibility-location-based stable associations between Symbiodiniaceae genera and Platygyra verweyi (Scleractinia; Merulinidae).

  Authors:Shashank Keshavmurthy, Hwee Sze Tee, Kuo-Wei Kao, Jih-Terng Wang, and Chaolun Allen ChenFrom:PeerJ (Vol. 8) Peer-Reviewed

  May 5, 20208,355 words Article 1390LThis study monitored symbiont communities bi-monthly in native coral cores used in a reciprocal transplantation of the coral Platygyra verweyi over two years (2014-2016) and samples of mother colonies from three...

• The "naked coral" hypothesis revisited--evidence for and against scleractinian monophyly

  Authors:Marcelo V. Kitahara, Mei-Fang Lin, Sylvain Foret, Gavin Huttley, David J. Miller, and Chaolun Allen ChenFrom:PLoS ONE (Vol. 9, Issue 4) Peer-Reviewed

  Apr. 20148,215 words Report 1530LThe relationship between Scleractinia and Corallimorpharia, Orders within Anthozoa distinguished by the presence of an aragonite skeleton in the former, is controversial. Although classically considered distinct groups,...

• Mitochondrial and Nuclear Genes Suggest that Stony Corals Are Monophyletic but Most Families of Stony Corals Are Not (Order Scleractinia, Class Anthozoa, Phylum Cnidaria)

  Authors:Hironobu Fukami, Chaolun Allen Chen, Ann F. Budd, Allen Collins, Carden Wallace, Yao-Yang Chuang, et al.From:PLoS ONE (Vol. 3, Issue 9) Peer-Reviewed

  Sept. 16, 20086,418 words Article 1490LModern hard corals (Class Hexacorallia; Order Scleractinia) are widely studied because of their fundamental role in reef building and their superb fossil record extending back to the Triassic. Nevertheless,...

• DNA Barcoding of Shark Meats Identify Species Composition and CITES-Listed Species from the Markets in Taiwan

  Authors:Shang-Yin Vanson Liu, Chia-Ling Carynn Chan, Oceana Lin, Chieh-Shen Hu, and Chaolun Allen ChenFrom:PLoS ONE (Vol. 8, Issue 11) Peer-Reviewed

  Nov. 18, 20135,868 words Article 1440LAuthor(s): Shang-Yin Vanson Liu 1,2, Chia-Ling Carynn Chan 1, Oceana Lin 3, Chieh-Shen Hu 3, Chaolun Allen Chen 1,4,5,* Introduction Unsustainable fishing pressure has led to the decline of most shark populations,...

• Spatial heterogeneity of coral reef benthic communities in Kenya

  Authors:Juliet Furaha Karisa, David Obare Obura, and Chaolun Allen ChenFrom:PLoS ONE (Vol. 15, Issue 8) Peer-Reviewed

  Aug. 26, 20208,793 words Report 1510LAuthor(s): Juliet Furaha Karisa 1,2,3,4, David Obare Obura 5, Chaolun Allen Chen 1,2,3,6,7,* Introduction Coral reefs are among the most biodiverse ecosystems in the world [1], providing an array of ecological...

• Filamentous calcareous alga provides substrate for coral-competitive macroalgae in the degraded lagoon of Dongsha Atoll, Taiwan

  Authors:Carolin Nieder, Chen-Pan Liao, Chaolun Allen Chen, and Shao-Lun LiuFrom:PLoS ONE (Vol. 14, Issue 5) Peer-Reviewed

  May 16, 20197,543 words Report 1460LBackground The chemically-rich seaweed Galaxaura is not only highly competitive with corals, but also provides substrate for other macroalgae. Its ecology and associated epiphytes remain largely unexplored. To fill...