LIVIVO - Search results -

Search results

Result 1 - 10 of total 1087

Search options

Article ; Online: Patterns of genomic differentiation between two Lake Victoria cichlid species, Haplochromis pyrrhocephalus and H. sp. 'macula'.

Takuno, Shohei / Miyagi, Ryutaro / Onami, Jun-Ichi / Takahashi-Kariyazono, Shiho / Sato, Akie / Tichy, Herbert / Nikaido, Masato / Aibara, Mitsuto / Mizoiri, Shinji / Mrosso, Hillary D J / Mzighani, Semvua I / Okada, Norihiro / Terai, Yohey

BMC evolutionary biology

2019 Volume 19, Issue 1, Page(s) 68

Abstract: ... pyrrhocephalus and H. sp. 'macula,' based on the pooled genome sequences of 20 individuals of each species ...

Abstract	Background: The molecular basis of the incipient stage of speciation is still poorly understood. Cichlid fish species in Lake Victoria are a prime example of recent speciation events and a suitable system to study the adaptation and reproductive isolation of species. Results: Here, we report the pattern of genomic differentiation between two Lake Victoria cichlid species collected in sympatry, Haplochromis pyrrhocephalus and H. sp. 'macula,' based on the pooled genome sequences of 20 individuals of each species. Despite their ecological differences, population genomics analyses demonstrate that the two species are very close to a single panmictic population due to extensive gene flow. However, we identified 21 highly differentiated short genomic regions with fixed nucleotide differences. At least 15 of these regions contained genes with predicted roles in adaptation and reproductive isolation, such as visual adaptation, circadian clock, developmental processes, adaptation to hypoxia, and sexual selection. The nonsynonymous fixed differences in one of these genes, LWS, were reported as substitutions causing shift in absorption spectra of LWS pigments. Fixed differences were found in the promoter regions of four other differentially expressed genes, indicating that these substitutions may alter gene expression levels. Conclusions: These diverged short genomic regions may have contributed to the differentiation of two ecologically different species. Moreover, the origins of adaptive variants within the differentiated regions predate the geological formation of Lake Victoria; thus Lake Victoria cichlid species diversified via selection on standing genetic variation.
MeSH term(s)	Animals ; Base Sequence ; Cichlids/genetics ; Gene Flow ; Genetic Speciation ; Genome ; Genomics ; Lakes ; Polymorphism, Genetic ; Species Specificity ; Sympatry
Language	English
Publishing date	2019-03-04
Publishing country	England
Document type	Journal Article ; Research Support, Non-U.S. Gov't
ZDB-ID	2041493-6
ISSN	1471-2148 ; 1471-2148
ISSN (online)	1471-2148
ISSN	1471-2148
DOI	10.1186/s12862-019-1387-2
Database	MEDical Literature Analysis and Retrieval System OnLINE

Full text online

Accessible to users with ZB MED library card

Order via subito

This service is chargeable due to the Delivery terms set by subito. Orders including an article and supplementary material will be classified as separate orders. In these cases, fees will be demanded for each order.

Details ▾
- Full text online
- Order with fees

Article ; Online: P cycle cannot be a general mechanism for energy production, and it does not sensitize bacteria toward aminoglycosides.

Nikaido, Hiroshi

Proceedings of the National Academy of Sciences of the United States of America

2019 Volume 116, Issue 30, Page(s) 14801

MeSH term(s)	Aminoglycosides ; Anti-Bacterial Agents ; Bacteria ; Protein Synthesis Inhibitors ; Pyruvic Acid
Chemical Substances	Aminoglycosides ; Anti-Bacterial Agents ; Protein Synthesis Inhibitors ; Pyruvic Acid (8558G7RUTR)
Language	English
Publishing date	2019-07-16
Publishing country	United States
Document type	Letter ; Comment
ZDB-ID	209104-5
ISSN	1091-6490 ; 0027-8424
ISSN (online)	1091-6490
ISSN	0027-8424
DOI	10.1073/pnas.1811810115
Database	MEDical Literature Analysis and Retrieval System OnLINE

In stock of ZB MED Cologne/Königswinter

Zs.A 1148: Show issues

Location:
Je nach Verfügbarkeit (siehe Angabe bei Bestand)
bis Jg. 1994: Bestellungen von Artikeln über das Online-Bestellformular
Jg. 1995 - 2021: Lesesall (1.OG)
ab Jg. 2022: Lesesaal (EG)

Order via subito

Details ▾
- See ZB MED holdings
- Order with fees

Article ; Online: RND transporters in the living world.

Nikaido, Hiroshi

Research in microbiology

2018 Volume 169, Issue 7-8, Page(s) 363–371

Abstract: Transporters of the RND superfamily are well-known as the major drug efflux pumps of Gram-negative bacteria. However, they are widespread in organisms ranging from Archaea to Eukaryotes, and perform diverse functions. This review gives a brief overview ... ...

Abstract	Transporters of the RND superfamily are well-known as the major drug efflux pumps of Gram-negative bacteria. However, they are widespread in organisms ranging from Archaea to Eukaryotes, and perform diverse functions. This review gives a brief overview of these diverse members of the superfamily with emphasis on their structure and functions.
MeSH term(s)	Animals ; Anti-Bacterial Agents/metabolism ; Bacteria/chemistry ; Bacteria/classification ; Bacteria/genetics ; Bacteria/metabolism ; Bacterial Proteins/chemistry ; Bacterial Proteins/genetics ; Bacterial Proteins/metabolism ; Eukaryota/chemistry ; Eukaryota/classification ; Eukaryota/genetics ; Eukaryota/metabolism ; Evolution, Molecular ; Humans ; Membrane Transport Proteins/chemistry ; Membrane Transport Proteins/genetics ; Membrane Transport Proteins/metabolism ; Models, Molecular ; Multigene Family
Chemical Substances	Anti-Bacterial Agents ; Bacterial Proteins ; Membrane Transport Proteins
Language	English
Publishing date	2018-03-22
Publishing country	France
Document type	Journal Article ; Review
ZDB-ID	1004220-9
ISSN	1769-7123 ; 0923-2508
ISSN (online)	1769-7123
ISSN	0923-2508
DOI	10.1016/j.resmic.2018.03.001
Database	MEDical Literature Analysis and Retrieval System OnLINE

In stock of ZB MED Cologne/Königswinter

Zs.A 890: Show issues

Location:
Je nach Verfügbarkeit (siehe Angabe bei Bestand)
bis Jg. 1994: Bestellungen von Artikeln über das Online-Bestellformular
Jg. 1995 - 2021: Lesesall (1.OG)
ab Jg. 2022: Lesesaal (EG)

Order via subito

Details ▾
- See ZB MED holdings
- Order with fees

Article ; Online: Covalently Linked Trimers of RND (Resistance-Nodulation-Division) Efflux Transporters to Study Their Mechanism of Action: Escherichia coli AcrB Multidrug Exporter as an Example.

Nikaido, Hiroshi

Methods in molecular biology (Clifton, N.J.)

2017 Volume 1700, Page(s) 147–165

Abstract: Transporters undergo large conformational changes in their functional cycle. RND (Resistance-Nodulation-Division) family efflux transporters usually exist as homotrimers, and each protomer was proposed to undergo a cycle of conformational changes in ... ...

Abstract	Transporters undergo large conformational changes in their functional cycle. RND (Resistance-Nodulation-Division) family efflux transporters usually exist as homotrimers, and each protomer was proposed to undergo a cycle of conformational changes in succession so that at any given time the trimer would contain three protomers of different conformations, the functionally rotating mechanism of transport. This mechanism implies that the inactivation of one protomer among three will inactivate the entire trimeric ensemble by blocking the functional rotation. We describe a biochemical approach to test this prediction by first producing a giant protein in which the three protomers of Escherichia coli AcrB efflux pump are covalently linked together through linker sequences, and then testing for its function by inactivation of a single protomer unit. Inactivation can be done permanently by mutating a residue involved in proton relay, or in "real time" by using a protein in which one protomer contains two Cys residues on both sides of the large cleft in the periplasmic domain and then by rapidly inactivating this protomer with a methanethiosulfonate cross-linker.
MeSH term(s)	Binding Sites ; Drug Resistance, Multiple, Bacterial ; Escherichia coli/chemistry ; Escherichia coli/genetics ; Escherichia coli/metabolism ; Escherichia coli Proteins/chemistry ; Escherichia coli Proteins/genetics ; Escherichia coli Proteins/metabolism ; Models, Molecular ; Multidrug Resistance-Associated Proteins/chemistry ; Multidrug Resistance-Associated Proteins/genetics ; Multidrug Resistance-Associated Proteins/metabolism ; Mutation ; Protein Binding ; Protein Conformation ; Protein Multimerization
Chemical Substances	AcrB protein, E coli ; Escherichia coli Proteins ; Multidrug Resistance-Associated Proteins
Language	English
Publishing date	2017-11-25
Publishing country	United States
Document type	Journal Article ; Research Support, N.I.H., Extramural
ISSN	1940-6029
ISSN (online)	1940-6029
DOI	10.1007/978-1-4939-7454-2_9
Database	MEDical Literature Analysis and Retrieval System OnLINE

Full text online

Accessible to users with ZB MED library card

Order via subito

Inter-library loan at ZB MED

Your chosen title can be delivered directly to ZB MED Cologne location if you are registered as a user at ZB MED Cologne.

Details ▾
- Full text online
- Order with fees

Article ; Online: Ancient standing genetic variation facilitated the adaptive radiation of Lake Victoria cichlids.

Nakamura, Haruna / Aibara, Mitsuto / Nikaido, Masato

Genes & genetic systems

2023 Volume 98, Issue 2, Page(s) 93–99

Abstract: Cichlid fishes are textbook examples of explosive speciation and adaptive radiation, providing a great opportunity to understand how the genomic substrate yields extraordinary species diversity. Recently, we performed comparative genomic analyses of ... ...

Abstract	Cichlid fishes are textbook examples of explosive speciation and adaptive radiation, providing a great opportunity to understand how the genomic substrate yields extraordinary species diversity. Recently, we performed comparative genomic analyses of three Lake Victoria cichlids to reveal the genomic substrates underlying their rapid speciation and adaptation. We found that long divergent haplotypes derived from large-scale standing genetic variation, which originated before the adaptive radiation of Lake Victoria cichlids, may have contributed to their rapid diversification. In addition, the present study on genomic data from other East African cichlids suggested the reuse of alleles that may have originated in the ancestral lineages of Lake Tanganyika cichlids during cichlid evolution. Therefore, our results highlight that the primary factor that could drive repeated adaptive radiation across East African cichlids was allelic reuse from standing genetic variation to adapt to their own specific environment. In this report, we summarize the main results and discuss the evolutionary mechanisms of cichlids, based on our latest findings.
MeSH term(s)	Animals ; Lakes ; Phylogeny ; Cichlids/genetics ; Tanzania ; Genetic Variation ; Genetic Speciation
Language	English
Publishing date	2023-07-28
Publishing country	Japan
Document type	Journal Article
ZDB-ID	1323536-9
ISSN	1880-5779 ; 1341-7568
ISSN (online)	1880-5779
ISSN	1341-7568
DOI	10.1266/ggs.23-00024
Database	MEDical Literature Analysis and Retrieval System OnLINE

In stock of ZB MED Cologne/Königswinter

Zs.A 3466: Show issues

Location:
Je nach Verfügbarkeit (siehe Angabe bei Bestand)
bis Jg. 1994: Bestellungen von Artikeln über das Online-Bestellformular
Jg. 1995 - 2021: Lesesall (2.OG)
ab Jg. 2022: Lesesaal (EG)

Order via subito

Details ▾
- See ZB MED holdings
- Order with fees

Article: Urea cycle disorder in C3H-H-2 degree mice with juvenile steatosis of viscera.

Imamura, Y / Saheki, T / Arakawa, H / Noda, T / Koizumi, T / Nikaido, H / Hayakawa, J

FEBS letters

1990 Volume 260, Issue 1, Page(s) 119–121

Abstract: We determined the activities of urea cycle enzymes in the liver of C3H-H-2 degree-jsv mice ...

Abstract	We determined the activities of urea cycle enzymes in the liver of C3H-H-2 degree-jsv mice. The activities of all urea cycle enzymes decreased in the latter period of lactation. The activities of carbamylphosphate synthetase and ornithine transcarbamylase in some affected mice were undetectable. On the other hand, the activities of enzymes other than urea cycle enzymes were normal. We consider that the decrease in the urea cycle enzymes is caused by an abnormality in the mechanism of gene expression.
MeSH term(s)	Ammonia/metabolism ; Animals ; Fatty Liver/enzymology ; Fatty Liver/genetics ; Fatty Liver/metabolism ; Gene Expression Regulation, Enzymologic ; Homozygote ; Lipid Metabolism, Inborn Errors/enzymology ; Lipid Metabolism, Inborn Errors/genetics ; Lipid Metabolism, Inborn Errors/metabolism ; Liver/enzymology ; Liver/metabolism ; Mice ; Mice, Inbred C3H ; Models, Biological ; Oxidation-Reduction ; Urea/metabolism
Chemical Substances	Ammonia (7664-41-7) ; Urea (8W8T17847W)
Language	English
Publishing date	1990-01-15
Publishing country	England
Document type	Journal Article ; Research Support, Non-U.S. Gov't
ZDB-ID	212746-5
ISSN	1873-3468 ; 0014-5793
ISSN (online)	1873-3468
ISSN	0014-5793
DOI	10.1016/0014-5793(90)80081-s
Database	MEDical Literature Analysis and Retrieval System OnLINE

In stock of ZB MED Cologne/Königswinter

Zs.B 282: Show issues

Location:
Je nach Verfügbarkeit (siehe Angabe bei Bestand)
bis Jg. 2021: Bestellungen von Artikeln über das Online-Bestellformular
ab Jg. 2022: Lesesaal (EG)

Order via subito

Details ▾
- See ZB MED holdings
- Order with fees

Article: The Usefulness of Deep Tendon Reflexes in the Diagnosis of Lumbar Spine Diseases: A Narrative Review.

Morimoto, Tadatsugu / Hirata, Hirohito / Watanabe, Kazuyuki / Kato, Kinshi / Otani, Koji / Mawatari, Masaaki / Nikaido, Takuya

Cureus

2024 Volume 16, Issue 3, Page(s) e55772

Abstract: The deep tendon reflex (DTR) is a more objective indicator than sensory and muscle assessments for lumbar spine disorders. Further, unlike sensory and muscle assessments that require patient cooperation, the DTR can be assessed even in patients with ... ...

Abstract	The deep tendon reflex (DTR) is a more objective indicator than sensory and muscle assessments for lumbar spine disorders. Further, unlike sensory and muscle assessments that require patient cooperation, the DTR can be assessed even in patients with impaired consciousness or cognition. Therefore, DTR assessment with a hammer is an essential neurological test for lumbar spinal diseases. However, despite the usefulness of DTR assessment, few reports have described the significance of increased, diminished, or absent deep lower extremity reflexes in lumbar spine diseases. This review outlines the history of DTR of the lower limbs and describes the techniques, evaluation, and interpretation of DTR for the diagnosis of lumbar spine diseases. The patellar tendon reflex (PTR) was the first parameter of lower extremity DTR identified to have clinical usefulness, followed by the Achilles tendon reflex (ATR), pathological reflexes (Babinski reflex), and reflex enhancement (Jendrassik maneuver). They have now become an integral part of clinical examination. To determine whether an increase or decrease in DTR is pathological, it is necessary to determine left-right differences, differences between the upper and lower extremities, and the overall balance of the limb. There are several critical limitations and pitfalls in interpreting DTRs for lumbar spine diseases. Attention should be paid to examiner and patient factors that make the DTR assessment less objective. When there is a discrepancy between clinical and imaging findings and the level of the lumbosacral nerve root disorder is difficult to diagnose, the presence of a lumbosacral transitional vertebra, nerve root malformation, or furcal nerve should be considered. In addition, assessing the DTR after the gait loading test and standing extension loading test, which induce lumbosacral neuropathy, will help provide a rationale for the diagnosis.
Language	English
Publishing date	2024-03-08
Publishing country	United States
Document type	Journal Article ; Review
ZDB-ID	2747273-5
ISSN	2168-8184
ISSN	2168-8184
DOI	10.7759/cureus.55772
Database	MEDical Literature Analysis and Retrieval System OnLINE

Order via subito

Article ; Online: Localized Expression of Olfactory Receptor Genes in the Olfactory Organ of Common Minke Whales.

Hirose, Ayumi / Nakamura, Gen / Nikaido, Masato / Fujise, Yoshihiro / Kato, Hidehiro / Kishida, Takushi

International journal of molecular sciences

2024 Volume 25, Issue 7

Abstract: Baleen whales (Mysticeti) possess the necessary anatomical structures and genetic elements for olfaction. Nevertheless, ... ...

Abstract	Baleen whales (Mysticeti) possess the necessary anatomical structures and genetic elements for olfaction. Nevertheless, the
MeSH term(s)	Animals ; Minke Whale ; Nasal Mucosa ; Smell/genetics ; Affect ; Cetacea ; Receptors, Odorant/genetics
Chemical Substances	Receptors, Odorant
Language	English
Publishing date	2024-03-29
Publishing country	Switzerland
Document type	Journal Article
ZDB-ID	2019364-6
ISSN	1422-0067 ; 1422-0067 ; 1661-6596
ISSN (online)	1422-0067
ISSN	1422-0067 ; 1661-6596
DOI	10.3390/ijms25073855
Database	MEDical Literature Analysis and Retrieval System OnLINE

Order via subito

Article: RND transporters in the living world

Nikaido, Hiroshi

Institut Pasteur Research in microbiology. 2018 Sept., Oct., v. 169, no. 7-8

2018

Abstract	Transporters of the RND superfamily are well-known as the major drug efflux pumps of Gram-negative bacteria. However, they are widespread in organisms ranging from Archaea to Eukaryotes, and perform diverse functions. This review gives a brief overview of these diverse members of the superfamily with emphasis on their structure and functions.
Keywords	Archaea ; Gram-negative bacteria ; eukaryotic cells ; transporters
Language	English
Dates of publication	2018-09
Size	p. 363-371.
Publishing place	Elsevier Masson SAS
Document type	Article
ZDB-ID	1004220-9
ISSN	1769-7123 ; 0923-2508
ISSN (online)	1769-7123
ISSN	0923-2508
DOI	10.1016/j.resmic.2018.03.001
Database	NAL-Catalogue (AGRICOLA)

In stock of ZB MED Bonn / Germany

Z 63/179 A/B: Show issues

Order via subito

Inter-library loan at ZB MED

Your chosen title can be delivered directly to ZB MED Cologne location if you are registered as a user at ZB MED Cologne.

Details ▾
- See ZB MED holdings
- Order with fees

Article ; Online: SINEs as Credible Signs to Prove Common Ancestry in the Tree of Life: A Brief Review of Pioneering Case Studies in Retroposon Systematics.

Nikaido, Masato / Nishihara, Hidenori / Okada, Norihiro

Genes

2022 Volume 13, Issue 6

Abstract: Currently, the insertions of SINEs (and other retrotransposed elements) are regarded as one of the most reliable synapomorphies in molecular systematics. The methodological mainstream of molecular systematics is the calculation of nucleotide (or amino ... ...

Abstract	Currently, the insertions of SINEs (and other retrotransposed elements) are regarded as one of the most reliable synapomorphies in molecular systematics. The methodological mainstream of molecular systematics is the calculation of nucleotide (or amino acid) sequence divergences under a suitable substitution model. In contrast, SINE insertion analysis does not require any complex model because SINE insertions are unidirectional and irreversible. This straightforward methodology was named the "SINE method," which resolved various taxonomic issues that could not be settled by sequence comparison alone. The SINE method has challenged several traditional hypotheses proposed based on the fossil record and anatomy, prompting constructive discussions in the Evo/Devo era. Here, we review our pioneering SINE studies on salmon, cichlids, cetaceans, Afrotherian mammals, and birds. We emphasize the power of the SINE method in detecting incomplete lineage sorting by tracing the genealogy of specific genomic loci with minimal noise. Finally, in the context of the whole-genome era, we discuss how the SINE method can be applied to further our understanding of the tree of life.
MeSH term(s)	Animals ; Evolution, Molecular ; Genome ; Mammals/genetics ; Phylogeny ; Retroelements/genetics ; Short Interspersed Nucleotide Elements
Chemical Substances	Retroelements
Language	English
Publishing date	2022-05-31
Publishing country	Switzerland
Document type	Journal Article ; Review
ZDB-ID	2527218-4
ISSN	2073-4425 ; 2073-4425
ISSN (online)	2073-4425
ISSN	2073-4425
DOI	10.3390/genes13060989
Database	MEDical Literature Analysis and Retrieval System OnLINE

Order via subito

To top

Full text online

More links

Kategorien

Order via subito

More links

Kategorien

In stock of ZB MED Cologne/Königswinter

Order via subito

More links

Kategorien

In stock of ZB MED Cologne/Königswinter

Order via subito

Full text online

More links

Kategorien

Order via subito

Inter-library loan at ZB MED

More links

Kategorien

In stock of ZB MED Cologne/Königswinter

Order via subito

More links

Kategorien

In stock of ZB MED Cologne/Königswinter

Order via subito

More links

Kategorien

Order via subito

More links

Kategorien

Order via subito

More links

Kategorien

In stock of ZB MED Bonn / Germany

Order via subito

Inter-library loan at ZB MED

More links

Kategorien

Order via subito