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Find video protocols related to scientific articles indexed in Pubmed.
The complete mitochondrial genome of Pampus echinogaster (Perciformes: Stromateidae).
Mitochondrial DNA
PUBLISHED: 03-13-2014
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Abstract The long PCR and primer walking methods are employed for determining the complete mitochondrial genome sequence of Pampus echinogaster. The mitogenome is a circular molecule of 17,694?bp in length including the structure of 13 protein-coding genes, 2 ribosomal RNA genes, 23 transfer RNA genes and 2 non-coding regions (L-strand replication origin and control region). Two tRNA(Met) genes are identified in the tRNA-IQM region. Within the control region, we identify the termination-associated sequence domain (TAS), a central conserved domain (CSB-F, CSB-E and CSB-D) and three conserved sequence blocks (CSB-1, CSB-2 and CSB-3). There are 10 copies of tandem repeats of 120-124?bp in the control region, which contain CSB-3.
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The complete mitochondrial genome of the tessellated leatherjacket Thamnaconus tessellatus (Tetraodontiformes: Monacanthidae).
Mitochondrial DNA
PUBLISHED: 02-14-2014
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Abstract The long PCR and primer walking methods were applied for obtaining the complete mitochondrial genome of the tessellated leatherjacket Thamnaconus tessellatus. The complete mitochondrial genome was 16,437?bp in length and contained 13 protein-coding genes, 2 ribosomal RNA genes, 22 transfer RNA genes, an origin of L-strand replication and a control region. The arrangements and characteristics of these segments shared common features with other teleosts. Extended termination associated sequence domain (TAS, cTAS), central conserved sequence block domain (CSB-F, CSB-E, CSB-D) and conserved sequence block domain (CSB-1, CSB-2, CSB-3) were identified in the control region.
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Genetic differentiation of Trachurus japonicus from the Northwestern Pacific based on the mitochondrial DNA control region.
Mitochondrial DNA
PUBLISHED: 04-02-2013
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Trachurus japonicus is a pelagic fish widely distributed from China, Korea to Japan. To examine the gene flow of T. japonicus between Chinese and Japanese coastal waters, eight populations were collected for the present study. Eighty-seven variable sites defined 168 haplotypes. The populations of T. japonicus showed high haplotype diversity (h) with a range from 0.964 ± 0.027 to 1.000 ± 0.016 and low nucleotide diversity with a range from 0.011 ± 0.006 to 0.015 ± 0.008. The topology of the neighbour-joining tree showed no significant genealogical branches or clusters corresponding to sampling localities. The starburst structure of the minimum spanning tree suggested a very recent origin for most haplotypes. Both pairwise F st and analysis of molecular variance revealed no significant genetic differentiation throughout the range examined. The results of neutrality tests and mismatch distributions indicated that T. japonicus may experience a recent population demographic expansion.
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Toxicity testing of waterborne mercury with red sea bream (Pagrus major) embryos and larvae.
Bull Environ Contam Toxicol
PUBLISHED: 03-04-2011
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Acute toxicity tests revealed that, in red sea bream (Pagrus major) embryos, 24 and 48 h LC(50) values of waterborne HgCl(2) were 67.3 and 39.1 ?g Hg(2+) L(-1). In larvae, 48, 72 and 96 h LC(50) values were 41.9, 36.1 and 34.8 ?g Hg(2+) L(-1), respectively. Sub-chronic toxicity tests indicated that mercury concentrations ?20 ?g Hg(2+) L(-1) decreased hatching success, increased mortality and induced teratogenicity in embryos and larvae. The NOEC, LOEC and MATC values were 8.0, 16.3 and 11.4 ?g Hg(2+) L(-1) for hatching success, mortality and teratogenicity; while those were 27.0, 36.9 and 31.6 ?g Hg(2+) L(-1) for body length and specific growth rate, respectively.
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Short-term mercury exposure affecting the development and antioxidant biomarkers of Japanese flounder embryos and larvae.
Ecotoxicol. Environ. Saf.
PUBLISHED: 05-12-2010
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This study investigated the acute and sub-lethal toxicities of waterborne mercuric chloride to Japanese flounder (Paralichthys olivaceus) embryos and larvae. Acute toxicity tests indicated that the 48-h LC(50) values of mercury to the embryos and larvae were 48.1 (32.8-63.6) and 99.4 (72.9-147.0) ?g L(-1), respectively. Mercury could cause low hatching success, delayed hatching process, reduced growth at concentrations ?20 ?g L(-1), and induce reduced survival and higher morphological malformations at concentrations ?40 ?g L(-1) in the embryos and larvae. In sub-lethal toxicity test, superoxide dismutase (SOD) and catalase (CAT) activities, reduced glutathione (GSH) and malondialdehyde (MDA) contents of the larvae were significantly increased, while glutathione-S-transferase (GST) was decreased by 10 days of 0-10 ?g Hg(2+)L(-1) exposure. These findings suggested that the hatching, survival, growth and antioxidant biomarkers of the flounder were sensitive to the highest mercury concentrations and could thereby serve as potential biomarkers for evaluating mercury contamination in the aquatic environment.
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[Diversity of C16 H33 Cl-degrading bacteria in surface seawater of the Arctic Ocean].
Wei Sheng Wu Xue Bao
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To detect the diversity of the degradation bacteria of halogenated-alkane form the surface seawater of the Arctic Ocean.
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What maintains the central North Pacific genetic discontinuity in Pacific herring?
PLoS ONE
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Pacific herring show an abrupt genetic discontinuity in the central North Pacific that represents secondary contact between refuge populations previously isolated during Pleistocene glaciations. Paradoxically, high levels of gene flow produce genetic homogeneity among ocean-type populations within each group. Here, we surveyed variability in mtDNA control-region sequences (463 bp) and nine microsatellite loci in Pacific herring from sites across the North Pacific to further explore the nature of the genetic discontinuity around the Alaska Peninsula. Consistent with previous studies, little divergence (?(ST) ?= 0.011) was detected between ocean-type populations of Pacific herring in the North West Pacific, except for a population in the Yellow Sea (?(ST) ?= 0.065). A moderate reduction in genetic diversity for both mtDNA and microsatellites in the Yellow Sea likely reflects founder effects during the last colonization of this sea. Reciprocal monophyly between divergent mtDNA lineages (?(ST) ?= 0.391) across the Alaska Peninsula defines the discontinuity across the North Pacific. However, microsatellites did not show a strong break, as eastern Bering Sea (EBS) herring were more closely related to NE Pacific than to NW Pacific herring. This discordance between mtDNA and microsatellites may be due to microsatellite allelic convergence or to sex-biased dispersal across the secondary contact zone. The sharp discontinuity between Pacific herring populations may be maintained by high-density blocking, competitive exclusion or hybrid inferiority.
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What is Visualize?

JoVE Visualize is a tool created to match the last 5 years of PubMed publications to methods in JoVE's video library.

How does it work?

We use abstracts found on PubMed and match them to JoVE videos to create a list of 10 to 30 related methods videos.

Video X seems to be unrelated to Abstract Y...

In developing our video relationships, we compare around 5 million PubMed articles to our library of over 4,500 methods videos. In some cases the language used in the PubMed abstracts makes matching that content to a JoVE video difficult. In other cases, there happens not to be any content in our video library that is relevant to the topic of a given abstract. In these cases, our algorithms are trying their best to display videos with relevant content, which can sometimes result in matched videos with only a slight relation.