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Synonyms:
   Paroedura picta (English common name not available) 
   Paroedura pictus (Madagascar Ground Gecko) 

Broader Terms:
   Paroedura (Madagascar Ground Geckos) 
 
 
Latest Articles on Paroedura picta PETERS 1854 from uBioRSS
Neither male gonadal androgens nor female reproductive costs drive developm... - Journal of Experimental Biology current issue


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Common Names: English common name not available



1.  Technical considerations in Hi-C scaffolding and evaluation of chromosome-scale genome assemblies.LinkIT
Yamaguchi K, Kadota M, Nishimura O, Ohishi Y, Naito Y, Kuraku S
Molecular ecologyMol EcolTechnical considerations in Hi-C scaffolding and evaluation of chromosome-scale genome assemblies.5923-593410.1111/mec.16146The recent development of ecological studies has been fueled by the introduction of massive information based on chromosome-scale genome sequences, even for species for which genetic linkage is not accessible. This was enabled mainly by the application of Hi-C, a method for genome-wide chromosome conformation capture that was originally developed for investigating the long-range interaction of chromatins. Performing genomic scaffolding using Hi-C data is highly resource-demanding and employs elaborate laboratory steps for sample preparation. It starts with building a primary genome sequence assembly as an input, which is followed by computation for genome scaffolding using Hi-C data, requiring careful validation. This article presents technical considerations for obtaining optimal Hi-C scaffolding results and provides a test case of its application to a reptile species, the Madagascar ground gecko (Paroedura picta). Among the metrics that are frequently used for evaluating scaffolding results, we investigate the validity of the completeness assessment of chromosome-scale genome assemblies using single-copy reference orthologues.© 2021 The Authors. Molecular Ecology published by John Wiley & Sons Ltd.YamaguchiKazuakiKhttps://orcid.org/0000-0002-9890-7721Laboratory for Phyloinformatics, RIKEN Center for Biosystems Dynamics Research, Kobe, Japan.KadotaMitsutakaMhttps://orcid.org/0000-0002-1674-6697Laboratory for Phyloinformatics, RIKEN Center for Biosystems Dynamics Research, Kobe, Japan.NishimuraOsamuOhttps://orcid.org/0000-0003-1969-2580Laboratory for Phyloinformatics, RIKEN Center for Biosystems Dynamics Research, Kobe, Japan.OhishiYutaYhttps://orcid.org/0000-0002-0995-9619Laboratory for Phyloinformatics, RIKEN Center for Biosystems Dynamics Research, Kobe, Japan.NaitoYukiYhttps://orcid.org/0000-0002-1182-6786Database Center for Life Science (DBCLS), Mishima, Japan.KurakuShigehiroShttps://orcid.org/0000-0003-1464-8388Laboratory for Phyloinformatics, RIKEN Center for Biosystems Dynamics Research, Kobe, Japan.Molecular Life History Laboratory, National Institute of Genetics, Mishima, Japan.Department of Genetics, Sokendai (Graduate University for Advanced Studies), Mishima, Japan.engEpigenome Manipulation ProjectRIKENGrant-in-Aid for Scientific Research (B) 20H03269Ministry of Education, Culture, Sports, Science and TechnologyJournal Article20210912EnglandMol Ecol92144780962-1083IMBUSCOHi-C scaffoldingchromosome-scale genome assemblycompleteness assessmentgene spaceiconHi-C20210728202012142021081820218266020218266020218251731ppublish3443292310.1111/mec.16146REFERENCES, 2021</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>2.  <a href=http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?cmd=Retrieve&db=pubmed&dopt=Abstract&list_uids=0 class=title>Individual and age-related variation of cellular brain composition in a squamate reptile.</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>Kverková K, Polonyiová A, Kubi?ka L, N?mec P<br><font color=gray><i>Biology letters, 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>3.  <a href=http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?cmd=Retrieve&db=pubmed&dopt=Abstract&list_uids=0 class=title>Madagascar ground gecko genome analysis characterizes asymmetric fates of duplicated genes.</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>Hara Y, Takeuchi M, Kageyama Y, Tatsumi K, Hibi M, Kiyonari H, Kuraku S<br><font color=gray><i>BMC biology, 2018</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>4.  <a href=http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?cmd=Retrieve&db=pubmed&dopt=Abstract&list_uids=0 class=title>Variability in vertebral numbers does not contribute to sexual size dimorphism, interspecific variability, or phenotypic plasticity in body size in geckos (Squamata: Gekkota: Paroedura).</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>Kratochvíl L, Kubi?ka L, Vohralík M, Starostová Z<br><font color=gray><i>Journal of experimental zoology. Part A, Ecological and integrative physiology, 2018</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>5.  <a href=http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?cmd=Retrieve&db=pubmed&dopt=Abstract&list_uids=0 class=title>To fight or mate? Hormonal control of sex recognition, male sexual behavior and aggression in the gecko lizard.</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>Scho?álková T, Kratochvíl L, Kubi?ka L<br><font color=gray><i>Hormones and behavior, 2018</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>6.  <a href=http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?cmd=Retrieve&db=pubmed&dopt=Abstract&list_uids=0 class=title>Not all cells are equal: effects of temperature and sex on the size of different cell types in the Madagascar ground gecko <i>Paroedura picta</i>.</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>Czarnoleski M, Labecka AM, Starostová Z, Sikorska A, Bonda-Ostaszewska E, Woch K, Kubi?ka L, Kratochvíl L, Kozlowski J<br><font color=gray><i>Biology open, 2017</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>7.  <a href=http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?cmd=Retrieve&db=pubmed&dopt=Abstract&list_uids=0 class=title>An energetic perspective on tissue regeneration: The costs of tail autotomy in growing geckos.</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>Starostová Z, Gvo?dík L, Kratochvíl L<br><font color=gray><i>Comparative biochemistry and physiology. Part A, Molecular & integrative physiology, 2017</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>8.  <a href=http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?cmd=Retrieve&db=pubmed&dopt=Abstract&list_uids=0 class=title>Ovarian control of growth and sexual size dimorphism in a male-larger gecko.</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>Kubi?ka L, Scho?álková T, ?ervenka J, Kratochvíl L<br><font color=gray><i>The Journal of experimental biology, 2017</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>9.  <a href=http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?cmd=Retrieve&db=pubmed&dopt=Abstract&list_uids=0 class=title>The complete mitochondrial genome of the Madagascar ground gecko Paroedura picta (Squamata: Gekkonidae).</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>Starostová Z, Musilová Z<br><font color=gray><i>Mitochondrial DNA. Part A, DNA mapping, sequencing, and analysis, 2016</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>10.  <a href=http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?cmd=Retrieve&db=pubmed&dopt=Abstract&list_uids=0 class=title>Optimizing and benchmarking de novo transcriptome sequencing: from library preparation to assembly evaluation.</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>Hara Y, Tatsumi K, Yoshida M, Kajikawa E, Kiyonari H, Kuraku S<br><font color=gray><i>BMC genomics, 2015</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><img src=p.png border=0></td><td align=center><img src=o_red.png border=0></td><td align=center><a href=http://ubio.org/portal/index.php?search=Paroedura+picta+PETERS+1854&category=l&client=pubmed&startPage=2><img src=o_yellow.png border=0></a></td><td align=center><a href=http://ubio.org/portal/index.php?search=Paroedura+picta+PETERS+1854&category=l&client=pubmed&startPage=2><img src=rtal.png border=0></a></td></tr><td align=center></td><td align=center>1</td><td align=center><a href=http://ubio.org/portal/index.php?search=Paroedura+picta+PETERS+1854&category=l&client=pubmed&startPage=2>2</a></td><td align=center><a href=http://ubio.org/portal/index.php?search=Paroedura+picta+PETERS+1854&category=l&client=pubmed&startPage=2>»</a></td></tr></table></table></tr></table></td><script src="http://www.google-analytics.com/urchin.js" type="text/javascript"> </script> <script type="text/javascript"> _uacct = "UA-634822-1"; urchinTracker(); </script> </BODY> </HTML>