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Scientific:
   Plectropomus leopardus (Ujeeda magat) 

Synonyms:
   Holocentrus leopardus 
   Plectropomus laevis (Giant coral trout) 
   Plectropomus leopardus (Red coral trout) 

Broader Terms:
   Perciformes (perch-like fishes) 
   Plectropomus 
   Ujeeda 
 
 
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11.  De novo sequencing and chromosomal-scale genome assembly of leopard coral grouper, Plectropomus leopardus.LinkIT
Zhou Q, Guo X, Huang Y, Gao H, Xu H, Liu S, Zheng W, Zhang T, Tian C, Zhu C, Lin H, Chen S
Molecular ecology resources Mol Ecol Resour De novo sequencing and chromosomal-scale genome assembly of leopard coral grouper, Plectropomus leopardus. 1403-1413 10.1111/1755-0998.13207 The leopard coral grouper, Plectropomus leopardus, belonging to the family Epinephelinae, is a carnivorous coral reef fish widely distributed in tropical and subtropical waters of the Indo-Pacific. Due to its appealing body appearance and delicious taste, P. leopardus has become a popular commercial fish for aquaculture in many countries. However, the lack of genomic and molecular resources for P. leopardus has hindered study of its biology and genomic breeding programmes. Here we report the de novo sequencing and assembly of the P. leopardus genome using a combination of 10 × Genomics, high-throughput chromosome conformation capture (Hi-C) and PacBio long-read sequencing technologies. The genome assembly has a total length of 881.55 Mb with a scaffold N50 of 34.15 Mb, consisting of 24 pseudochromosome scaffolds. busco analysis showed that 97.2% of the conserved single-copy genes were retrieved, indicating the assembly was almost entire. We predicted 25,248 protein-coding genes, among which 96.5% were functionally annotated. Comparative genomic analyses revealed that gene family expansions in P. leopardus were associated with immune-related pathways. In addition, we identified 5,178,453 single nucleotide polymorphisms based on genome resequencing of 54 individuals. The P. leopardus genome and genomic variation data provide valuable genomic resources for studies of its genetics, evolution and biology. In particular, it is expected to benefit the development of genomic breeding programmes in the farming industry. © 2020 John Wiley & Sons Ltd. Zhou Qian Q https://orcid.org/0000-0002-2035-2009 Key Laboratory for Sustainable Development of Marine Fisheries, Ministry of Agriculture, Yellow Sea Fisheries Research Institute, Chinese Academy of Fishery Sciences, Qingdao, China. Laboratory for Marine Fisheries Science and Food Production Processes, Pilot National Laboratory for Marine Science and Technology (Qingdao), Qingdao, China. Guo Xinyu X BGI-Qingdao, BGI-Shenzhen, Qingdao, China. Qingdao-Europe Advanced Institute for Life Sciences, BGI-Shenzhen, Qingdao, China. Huang Yang Y Southern Marine Science and Engineering Guangdong Laboratory, Guangdong Research Centre on Reproductive Control and Breeding Technology of Indigenous Valuable Fish Species, Fisheries College, Guangdong Ocean University, Zhanjiang, China. Gao Haoyang H https://orcid.org/0000-0001-8208-4137 BGI-Qingdao, BGI-Shenzhen, Qingdao, China. Qingdao-Europe Advanced Institute for Life Sciences, BGI-Shenzhen, Qingdao, China. Xu Hao H Key Laboratory for Sustainable Development of Marine Fisheries, Ministry of Agriculture, Yellow Sea Fisheries Research Institute, Chinese Academy of Fishery Sciences, Qingdao, China. Liu Shanshan S BGI-Qingdao, BGI-Shenzhen, Qingdao, China. Qingdao-Europe Advanced Institute for Life Sciences, BGI-Shenzhen, Qingdao, China. Zheng Weiwei W Key Laboratory for Sustainable Development of Marine Fisheries, Ministry of Agriculture, Yellow Sea Fisheries Research Institute, Chinese Academy of Fishery Sciences, Qingdao, China. Zhang Tianshi T Key Laboratory for Sustainable Development of Marine Fisheries, Ministry of Agriculture, Yellow Sea Fisheries Research Institute, Chinese Academy of Fishery Sciences, Qingdao, China. Tian Changxu C Southern Marine Science and Engineering Guangdong Laboratory, Guangdong Research Centre on Reproductive Control and Breeding Technology of Indigenous Valuable Fish Species, Fisheries College, Guangdong Ocean University, Zhanjiang, China. Zhu Chunhua C Southern Marine Science and Engineering Guangdong Laboratory, Guangdong Research Centre on Reproductive Control and Breeding Technology of Indigenous Valuable Fish Species, Fisheries College, Guangdong Ocean University, Zhanjiang, China. Lin Haoran H School of Life Sciences, Sun Yat-Sen University, Guangzhou, China. Chen Songlin S Key Laboratory for Sustainable Development of Marine Fisheries, Ministry of Agriculture, Yellow Sea Fisheries Research Institute, Chinese Academy of Fishery Sciences, Qingdao, China. Laboratory for Marine Fisheries Science and Food Production Processes, Pilot National Laboratory for Marine Science and Technology (Qingdao), Qingdao, China. eng ZJW-2019-06 Southern Marine Science and Engineering Guangdong Laboratory (Zhanjiang) 2017ASTCP-OS15 Laboratory for Marine Fisheries Science and Food Production Processes, Pilot National Laboratory for Marine Science and Technology (Qingdao) 2016LZGC009 Shandong Superior Variety Project CAFS (No. 2020TD20) Central Public-interest Scientific Institution Basal Research Fund Shandong Taishan Scholar Climbing Project Journal Article 2020 07 23 England Mol Ecol Resour 101465604 1755-098X IM Plectropomus leopardus chromosomal assembly genome annotation genome sequencing leopard coral grouper 2019 10 25 2020 05 29 2020 06 03 2020 6 11 6 0 2020 6 11 6 0 2020 6 11 6 0 ppublish 32521104 10.1111/1755-0998.13207 REFERENCES, 2020</i></font><br><font color=#008000>http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?cmd=Retrieve&db=pubmed&dopt=Abstract&list_uids=0<br></font></span><br>12.  <a href=http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?cmd=Retrieve&db=pubmed&dopt=Abstract&list_uids=0 class=title>Could the gut microbiota community in the coral trout Plectropomus leopardus (Lacepède, 1802) be affected by antibiotic bath administration?</a><a href=http://ubio.org/tools/linkit.php?map%5B%5D=all&link_type=2&url=http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?cmd=Retrieve&db=pubmed&dopt=Abstract&list_uids=0><img src=linkit.png border=0 title='LinkIT' alt='LinkIT'></a> <br><span class=j>Zheng X, Zhou S, Hu J, Yang R, Gu Z, Qin JG, Ma Z, Yu G<br><font color=gray><i>Veterinary medicine and science, 2020</i></font><br><font color=#008000>http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?cmd=Retrieve&db=pubmed&dopt=Abstract&list_uids=0<br></font></span><br>13.  <a href=http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?cmd=Retrieve&db=pubmed&dopt=Abstract&list_uids=0 class=title>Whole-genome sequencing of leopard coral grouper ( <i>Plectropomus leopardus</i>) and exploration of regulation mechanism of skin color and adaptive evolution.</a><a href=http://ubio.org/tools/linkit.php?map%5B%5D=all&link_type=2&url=http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?cmd=Retrieve&db=pubmed&dopt=Abstract&list_uids=0><img src=linkit.png border=0 title='LinkIT' alt='LinkIT'></a> <br><span class=j>Yang Y, Wu LN, Chen JF, Wu X, Xia JH, Meng ZN, Liu XC, Lin HR<br><font color=gray><i>Zoological research, 2020</i></font><br><font color=#008000>http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?cmd=Retrieve&db=pubmed&dopt=Abstract&list_uids=0<br></font></span><br>14.  <a href=http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?cmd=Retrieve&db=pubmed&dopt=Abstract&list_uids=0 class=title>BCL-2 antagonism sensitizes cytotoxic T cell-resistant HIV reservoirs to elimination ex vivo.</a><a href=http://ubio.org/tools/linkit.php?map%5B%5D=all&link_type=2&url=http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?cmd=Retrieve&db=pubmed&dopt=Abstract&list_uids=0><img src=linkit.png border=0 title='LinkIT' alt='LinkIT'></a> <br><span class=j>Ren Y, Huang SH, Patel S, Alberto WDC, Magat D, Ahimovic D, Macedo AB, Durga R, Chan D, Zale E, Mota TM, Truong R, Rohwetter T, McCann CD, Kovacs CM, Benko E, Wimpelberg A, Cannon C, Hardy WD, Bosque A, Bollard CM, Jones RB<br><font color=gray><i>The Journal of clinical investigation, 2020</i></font><br><font color=#008000>http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?cmd=Retrieve&db=pubmed&dopt=Abstract&list_uids=0<br></font></span><br>15.  <a href=http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?cmd=Retrieve&db=pubmed&dopt=Abstract&list_uids=0 class=title>Integrated Assessment of Viral Transcription, Antigen Presentation, and CD8<sup>+</sup> T Cell Function Reveals Multiple Limitations of Class I-Selective Histone Deacetylase Inhibitors during HIV-1 Latency Reversal.</a><a href=http://ubio.org/tools/linkit.php?map%5B%5D=all&link_type=2&url=http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?cmd=Retrieve&db=pubmed&dopt=Abstract&list_uids=0><img src=linkit.png border=0 title='LinkIT' alt='LinkIT'></a> <br><span class=j>Mota TM, McCann CD, Danesh A, Huang SH, Magat DB, Ren Y, Leyre L, Bui TD, Rohwetter TM, Kovacs CM, Benko E, MacLaren L, Wimpelberg A, Cannon CM, Hardy WD, Safrit JT, Jones RB<br><font color=gray><i>Journal of virology, 2020</i></font><br><font color=#008000>http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?cmd=Retrieve&db=pubmed&dopt=Abstract&list_uids=0<br></font></span><br>16.  <a href=http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?cmd=Retrieve&db=pubmed&dopt=Abstract&list_uids=0 class=title>Detection of Acanthamoeba spp. in two major water reservoirs in the Philippines.</a><a href=http://ubio.org/tools/linkit.php?map%5B%5D=all&link_type=2&url=http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?cmd=Retrieve&db=pubmed&dopt=Abstract&list_uids=0><img src=linkit.png border=0 title='LinkIT' alt='LinkIT'></a> <br><span class=j>Milanez G, Masangkay F, Hapan F, Bencito T, Lopez M, Soriano J, Ascaño A, Lizarondo L, Santiago J, Somsak V, Kotepui M, Tsiami A, Tangpong J, Karanis P<br><font color=gray><i>Journal of water and health, 2020</i></font><br><font color=#008000>http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?cmd=Retrieve&db=pubmed&dopt=Abstract&list_uids=0<br></font></span><br>17.  <a href=http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?cmd=Retrieve&db=pubmed&dopt=Abstract&list_uids=0 class=title>Endogenous IL-33 and Its Autoamplification of IL-33/ST2 Pathway Play an Important Role in Asthma.</a><a href=http://ubio.org/tools/linkit.php?map%5B%5D=all&link_type=2&url=http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?cmd=Retrieve&db=pubmed&dopt=Abstract&list_uids=0><img src=linkit.png border=0 title='LinkIT' alt='LinkIT'></a> <br><span class=j>Magat JM, Thomas JL, Dumouchel JP, Murray F, Li WX, Li J<br><font color=gray><i>Journal of immunology (Baltimore, Md. : 1950), 2020</i></font><br><font color=#008000>http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?cmd=Retrieve&db=pubmed&dopt=Abstract&list_uids=0<br></font></span><br>18.  <a href=http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?cmd=Retrieve&db=pubmed&dopt=Abstract&list_uids=0 class=title>New records of anisakid nematodes from marine fishes off New Caledonia, with descriptions of five new species of Raphidascaris (Ichthyascaris) (Nematoda, Anisakidae).</a><a href=http://ubio.org/tools/linkit.php?map%5B%5D=all&link_type=2&url=http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?cmd=Retrieve&db=pubmed&dopt=Abstract&list_uids=0><img src=linkit.png border=0 title='LinkIT' alt='LinkIT'></a> <br><span class=j>Moravec F, Justine JL<br><font color=gray><i>Parasite (Paris, France), 2020</i></font><br><font color=#008000>http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?cmd=Retrieve&db=pubmed&dopt=Abstract&list_uids=0<br></font></span><br>19.  <a href=http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?cmd=Retrieve&db=pubmed&dopt=Abstract&list_uids=0 class=title>An updated checklist of the marine fish fauna of Redang Islands, Malaysia.</a><a href=http://ubio.org/tools/linkit.php?map%5B%5D=all&link_type=2&url=http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?cmd=Retrieve&db=pubmed&dopt=Abstract&list_uids=0><img src=linkit.png border=0 title='LinkIT' alt='LinkIT'></a> <br><span class=j>Du J, Loh KH, Hu W, Zheng X, Affendi YA, Ooi JLS, Ma Z, Rizman-Idid M, Chan AA<br><font color=gray><i>Biodiversity data journal, 2019</i></font><br><font color=#008000>http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?cmd=Retrieve&db=pubmed&dopt=Abstract&list_uids=0<br></font></span><br>20.  <a href=http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?cmd=Retrieve&db=pubmed&dopt=Abstract&list_uids=0 class=title>Radiomorphometric analysis of edentulous posterior mandibular ridges in the first molar region: a cone-beam computed tomography study.</a><a href=http://ubio.org/tools/linkit.php?map%5B%5D=all&link_type=2&url=http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?cmd=Retrieve&db=pubmed&dopt=Abstract&list_uids=0><img src=linkit.png border=0 title='LinkIT' alt='LinkIT'></a> <br><span class=j>Magat G<br><font color=gray><i>Journal of periodontal & implant science, 2020</i></font><br><font color=#008000>http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?cmd=Retrieve&db=pubmed&dopt=Abstract&list_uids=0<br></font></span><br><br><br><table cellspacing=0 cellpadding=0 align=center><tr valign=bottom><td align=center><a href=http://ubio.org/portal/index.php?search=Ujeeda+magat&category=l&client=pubmed&startPage=1><img src=p.png border=0></a></td><td align=center><a href=http://ubio.org/portal/index.php?search=Ujeeda+magat&category=l&client=pubmed&startPage=1><img src=o_yellow.png border=0></a></td><td align=center><img 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