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1. Triclosan toxicity in a model cyanobacterium (Anabaena flos-aquae): Growth, photosynthesis and transcriptomic response

Author:
Jiezhang Mo; Linrong Han; Runnan Lv; Michael W.L. Chiang; Rong Fan; Jiahua Guo
Source:
Journal of environmental sciences (China) 2023 v.127 pp. 82-90
ISSN:
1001-0742
Subject:
nucleotide sequences,   etc   ; Anabaena flos-aquae; Pseudomonas aeruginosa; biofilm; biosynthesis; environmental exposure; fatty acids; growth retardation; photosynthesis; starch; sucrose; toxicity; transcriptomics; triclosan; China;     Show all 15 Subjects
Abstract:
... Exposure to triclosan (TCS) has been reported to reduce photosynthetic pigments, suppress photosynthesis, and inhibit growth in both prokaryotic and eukaryotic algae including Anabaena flos-aquae (a model cyanobacterium). In particular, cyanobacteria are more sensitive to TCS toxicity compared to eukaryotic algae possibly due to the structural similarity to bacteria (target organisms); however, wh ...
DOI:
10.1016/j.jes.2022.03.039

2. Clinical and Molecular Genetic Characteristics of Patients with Oculocutaneous Albinism Type 1

Author:
S. A. Ionova; V. V. Kadyshev; N. V. Zhurkova; A. V. Marahonov; R. A. Zinchenko
Source:
Russian journal of genetics 2022 v.58 no.4 pp. 485-489
ISSN:
1022-7954
Subject:
nucleotide sequences,   etc   ; albino; genes; melanin;     Show all 4 Subjects
Abstract:
... Albinism is a heterogeneous group of genetically determined diseases associated with complete or partial disruption of melanin synthesis. There are various forms of hereditary albinism, including oculocutaneous albinism, ocular albinism, and different syndromic forms. The study analyzed a sample of patients (n = 90) with varied forms of albinism for the presence of pathogenic variants of the nucle ...
DOI:
10.1134/S1022795422040056

3. Proposal for transfer Bacillus alkalicola to the genus Evansella as Evansella alkalicola comb. nov

Author:
Manik Prabhu Narsing Rao; Shuang Wang; Haijie Wang; Ying-Qian Kang; Wen-Jun Li
Source:
Archives of microbiology 2022 v.204 no.7 pp. 433
ISSN:
0302-8933
Subject:
nucleotide sequences,   etc   ; amino acids; microbiology; phylogeny;     Show all 4 Subjects
Abstract:
... The taxonomic position of Bacillus alkalicola was evaluated using phylogenetic and genome-based comparisons. In phylogenetic (based on 16S rRNA gene sequence) and phylogenomic (based on concatenation of protein-marker genes) trees, Bacillus alkalicola clade with the members of the genus Evansella. The amino acid identity (AAI) values suggested to reclassify Bacillus alkalicola as a member of the g ...
DOI:
10.1007/s00203-022-03030-5

4. Complete nucleotide sequence of sweetbriar rose curly-top associated virus, a tentative member of the genus Waikavirus

Author:
Joe Tang; Catia Delmiglio; Lisa Ward; Jeremy Thompson
Source:
Archives of virology 2022 v.167 no.2 pp. 651-654
ISSN:
0304-8608
Subject:
nucleotide sequences,   etc   ; Rosa rubiginosa; Waikavirus; phylogeny; virology; viruses;     Show all 6 Subjects
Abstract:
... A novel virus, tentatively named “sweetbriar rose curly-top associated virus” (SRCTaV), was identified in sweetbriar rose (Rosa rubiginosa) using high-throughput sequencing. The complete genome sequence of SRCTaV was determined and characterized. Phylogenetic analysis revealed that SRCTaV is closely related to members of the genus Waikavirus. ...
DOI:
10.1007/s00705-021-05337-y

5. First Molecular Characterization of the Elusive Marine Protist Meteora sporadica

Author:
Luis Javier Galindo; Purificación López García; David Moreira
Source:
Protist 2022 pp. 125896
ISSN:
1434-4610
Subject:
nucleotide sequences,   etc   ; basins; locomotion; phylogeny; protists; Mediterranean Sea;     Show all 6 Subjects
Abstract:
... Meteora sporadica is a protist species first described by Hausmann et al. (2002) in deep-sea sediments from the Sporades Basin, Eastern Mediterranean Sea. Due to its unusual morphology and locomotion, very different from those of other high-rank eukaryotic taxa, it was classified as an incertae sedis species. Unfortunately, its morphological characterization was not accompanied by the generation o ...
DOI:
10.1016/j.protis.2022.125896

6. Genomic Organization of Streptomyces flavotricini NGL1 and Streptomyces erythrochromogenes HMS4 Reveals Differential Plant Beneficial Attributes and Laccase Production Capabilities

Author:
Richa Salwan; Randhir Kaur; Vivek Sharma
Source:
Molecular biotechnology 2022 v.64 no.4 pp. 447-462
ISSN:
1073-6085
Subject:
nucleotide sequences,   etc   ; Streptomyces flavotricini; biotechnology; genomics; laccase; remediation;     Show all 6 Subjects
Abstract:
... The genus Streptomyces has been explored in industrial sectors due to its endurance to environmental stresses, the production of a plethora of biomolecules, the biological remediation of soils, and alleviating plant stresses. The whole genome of NGL1 and HMS4 was sequenced due to the specific laccase activity against 2,6-dimethoxyphenol (2,6-DMP) and differential plant beneficial attributes. The d ...
DOI:
10.1007/s12033-021-00424-6

7. Morphology, Morphogenesis and Molecular Phylogeny of a New Soil Ciliate, Holostichides eastensis nov. spec. (Ciliophora, Hypotrichia)

Author:
Yurui Wang; Jingbao Li; Jingyi Wang; Chen Shao
Source:
Protist 2022 v.173 no.3 pp. 125881
ISSN:
1434-4610
Subject:
nucleotide sequences,   etc   ; monophyly; morphogenesis; ontogeny; protists; soil; China;     Show all 7 Subjects
Abstract:
... A new bakuellid ciliate, Holostichides eastensis nov. spec. isolated from China, is investigated in terms of its morphology, ontogenesis, and molecular phylogenesis. It is characterized by size 150–180 µm × 45–60 µm in vivo; 27–46 macronuclear nodules; cortical granules dark brown, spherical, about 0.5 µm across, clustered in groups and then arranged longitudinally; three frontal cirri with one to ...
DOI:
10.1016/j.protis.2022.125881

8. Twenty years of plant genome sequencing: achievements and challenges

Author:
Yanqing Sun; Lianguang Shang; Qian-Hao Zhu; Longjiang Fan; Longbiao Guo
Source:
Trends in plant science 2022 v.27 no.4 pp. 391-401
ISSN:
1360-1385
Subject:
nucleotide sequences,   etc   ; Arabidopsis thaliana; domestication; genome; plant biology;     Show all 5 Subjects
Abstract:
... Publication of the complete genome sequence of Arabidopsis thaliana, the first plant reference genome, in December 2000 heralded the beginning of the plant genome era. Over the past 20 years reference genomes have been generated for hundreds of plant species, spanning non-vascular to flowering plants. Releasing these plant genomes has dramatically advanced studies in all disciplines of plant biolo ...
DOI:
10.1016/j.tplants.2021.10.006

9. Twenty years of rice genomics research: From sequencing and functional genomics to quantitative genomics

Author:
Changsheng Wang; Bin Han
Source:
Molecular plant 2022 v.15 no.4 pp. 593-619
ISSN:
1674-2052
Subject:
nucleotide sequences,   etc   ; crops; molecular biology; rice; structural genomics;     Show all 5 Subjects
Abstract:
... Since the completion of the rice genome sequencing project in 2005, we have entered the era of rice genomics, which is still in its ascendancy. Rice genomics studies can be classified into three stages: structural genomics, functional genomics, and quantitative genomics. Structural genomics refers primarily to genome sequencing for the construction of a complete map of rice genome sequence. This i ...
DOI:
10.1016/j.molp.2022.03.009

10. The curse of the uncultured fungus

Author:
Kessy Abarenkov; Erik Kristiansson; Martin Ryberg; Sandra Nogal-Prata; Daniela Gómez-Martínez; Katrin Stüer-Patowsky; Tobias Jansson; Sergei Põlme; Masoomeh Ghobad-Nejhad; Natàlia Corcoll; Ruud Scharn; Marisol Sánchez-García; Maryia Khomich; Christian Wurzbacher; R. Henrik Nilsson
Source:
MycoKeys 2022 v.86 pp. 177-194
ISSN:
1314-4049
Subject:
nucleotide sequences,   etc   ; Ursidae; databases; fungi; researchers; sequence analysis;     Show all 6 Subjects
Abstract:
... AbstractThe international DNA sequence databases abound in fungal sequences not annotated beyond the kingdom level, typically bearing names such as “uncultured fungus”. These sequences beget low-resolution mycological results and invite further deposition of similarly poorly annotated entries. What do these sequences represent? This study uses a 767,918-sequence corpus of public full-length funga ...
DOI:
10.3897/mycokeys.86.76053

11. Assessment of VITEK® 2, MALDI-TOF MS and full gene 16S rRNA sequencing for aerobic endospore-forming bacteria isolated from a pharmaceutical facility

Author:
Luciana Veloso da Costa; Rebeca Vitoria da Silva Lage de Miranda; Erica Louro da Fonseca; Natalia Pedra Gonçalves; Cristhiane Moura Falavina dos Reis; Adriana Marques Frazão; Fernanda Ventura Cruz; Marcelo Luiz Lima Brandão; Juliana Nunes Ramos; Verônica Viana Vieira
Source:
Journal of microbiological methods 2022 v.194 pp. 106419
ISSN:
0167-7012
Subject:
nucleotide sequences,   etc   ; databases; endospore forming bacteria; genes; journals; methodology;     Show all 6 Subjects
Abstract:
... VITEK®2, MALDI-TOF MS and 16S rRNA sequencing were evaluated for the identification of aerobic endospore-forming bacteria (AEB) from a pharmaceutical facility. MALDI-TOF MS demonstrated higher accuracy compared to VITEK®2, although both databases were insufficient to identify AEB species. Sequencing was the best methodology, but unable to identify closely related species. ...
DOI:
10.1016/j.mimet.2022.106419

12. Chromosome-level genome sequence data and analysis of the white koji fungus, Aspergillus luchuensis mut. kawachii IFO 4308

Author:
Kazuki Mori; Chihiro Kadooka; Ken Oda; Kayu Okutsu; Yumiko Yoshizaki; Kazunori Takamine; Kosuke Tashiro; Masatoshi Goto; Hisanori Tamaki; Taiki Futagami
Source:
Data in Brief 2022 v.41 pp. 107888
ISSN:
2352-3409
Subject:
nucleotide sequences,   etc   ; Aspergillus; chromosomes; fungi; genome; koji; mitochondrial DNA;     Show all 7 Subjects
Abstract:
... Aspergillus luchuensis mut. kawachii is used primarily in the production of shochu, a traditional Japanese distilled alcoholic beverage. Here, we report the chromosome-level genome sequence of A. luchuensis mut. kawachii IFO 4308 (NBRC 4308) and a comparison of the sequence with that of A. luchuensis RIB2601. The genome of strain IFO 4308 was assembled into nine contigs consisting of eight chromos ...
DOI:
10.1016/j.dib.2022.107888

13. Genome sequence data of Bacillus velezensis BP1.2A and BT2.4

Author:
Christian Blumenscheit; Jennifer Jähne; Andy Schneider; Jochen Blom; Thomas Schweder; Peter Lasch; Rainer Borriss
Source:
Data in Brief 2022 v.41 pp. 107978
ISSN:
2352-3409
Subject:
nucleotide sequences,   etc   ; Bacillus velezensis; biological control; genome; plant growth;     Show all 5 Subjects
Abstract:
... Here, we report the complete genome sequence data of the biocontrol strains Bacillus velezensis BP1.2A and BT2.4 isolated from Vietnamese crop plants. The size of the genomes is 3,916,868 bp (BP1.2A), and 3,922,686 bp (BT2.4), respectively. The BioProjects have been deposited at NCBI GenBank. The GenBank accession numbers for the B. velezensis strains are PRJNA634914 (BP1.2A) and PRJNA634832 (BT2. ...
DOI:
10.1016/j.dib.2022.107978

14. Molecular phylogenetic analysis of Neodiplostomum and Fibricola (Digenea, Diplostomidae) does not support host-based systematics

Author:
Tyler J. Achatz; Eric E. Pulis; Ethan T. Woodyard; Thomas G. Rosser; Jakson R. Martens; Sara B. Weinstein; Alan Fecchio; Chris T. McAllister; Carlos Carrión Bonilla; Vasyl V. Tkach
Source:
Parasitology 2022 v.149 no.4 pp. 542-554
ISSN:
1469-8161
Subject:
nucleotide sequences,   etc   ; DNA; Diplostomidae; birds; mammals; mitochondria; parasitology; phylogeny;     Show all 8 Subjects
Abstract:
... Fibricola and Neodiplostomum are diplostomid genera with very similar morphology that are currently separated based on their definitive hosts. Fibricola spp. are normally found in mammals, while Neodiplostomum spp. typically parasitize birds. Previously, no DNA sequence data was available for any member of Fibricola. We generated nuclear ribosomal and mtDNA sequences of Fibricola cratera (type-spe ...
DOI:
10.1017/S003118202100216X

15. Nucleosome Positioning on Large Tandem DNA Repeats of the ‘601’ Sequence Engineered in Saccharomyces cerevisiae

Author:
Astrid Lancrey; Alexandra Joubert; Evelyne Duvernois-Berthet; Etienne Routhier; Saurabh Raj; Agnès Thierry; Marta Sigarteu; Loic Ponger; Vincent Croquette; Julien Mozziconacci; Jean-Baptiste Boulé
Source:
Journal of molecular biology 2022 v.434 no.7 pp. 167497
ISSN:
0022-2836
Subject:
nucleotide sequences,   etc   ; DNA; Saccharomyces cerevisiae; molecular biology; nucleosomes; yeasts;     Show all 6 Subjects
Abstract:
... The artificial 601 DNA sequence is often used to constrain the position of nucleosomes on a DNA molecule in vitro. Although the ability of the 147 base pair sequence to precisely position a nucleosome in vitro is well documented, application of this property in vivo has been explored only in a few studies and yielded contradictory conclusions. Our goal in the present study was to test the ability ...
DOI:
10.1016/j.jmb.2022.167497

16. Prions as Non-Canonical Hereditary Factors

Author:
O. N. Tikhodeyev
Source:
Russian journal of genetics 2022 v.58 no.6 pp. 626-637
ISSN:
1022-7954
Subject:
nucleotide sequences,   etc   ; amino acid sequences; genes; homozygosity; prions; reproduction;     Show all 6 Subjects
Abstract:
... The present review concerns the diversity of prions (proteinaceous infectious particles) and the mechanisms of their reproduction. Various strains of the same prion are considered. We demonstrate that any prion strain regardless its molecular organization and species identity, under passaging on the isogenic homozygous background, is per se a virus-like hereditary factor. Its features depend on (i ...
DOI:
10.1134/S1022795422060126

17. Single Nucleotide Polymorphisms, Gene Expression and Economic Evaluation of Parameters Associated with Mastitis Susceptibility in European Cattle Breeds

Author:
Ahmed I. Ateya; Samer S. Ibrahim; Mona M. Al-Sharif
Source:
Veterinary sciences 2022 v.9 no.6 pp. -
ISSN:
2306-7381
Subject:
nucleotide sequences,   etc   ; Brown Swiss; Holstein; economic evaluation; gene expression;     Show all 5 Subjects
Abstract:
... The objective of this study was to explore single nucleotide polymorphisms (SNPs), gene expression and economic evaluation of parameters associated with mastitis susceptibility in Holstein and Brown Swiss dairy cows. Two hundred and forty Holstein and Brown Swiss dairy cows (120 cows of each breed) were used in this study. The investigated dairy cows in each breed were allocated into two equal-siz ...
DOI:
10.3390/vetsci9060294

18. Variation in caprine KRTAP1-3 and its association with cashmere fibre diameter

Author:
Yize Song; Yuzhu Luo; Huitong Zhou; Xiu Liu; Shaobin Li; Zhiyun Hao; Jiyuan Shen; Huimin Zhen; Lu Li; Jiqing Wang; Jon G.H. Hickford
Source:
Gene 2022 v.823 pp. 146341
ISSN:
0378-1119
Subject:
nucleotide sequences,   etc   ; genes; genetic variation; genotype; goats; sequence diversity;     Show all 6 Subjects
Abstract:
... Keratin-associated proteins (KAPs) are components of cashmere fibres. The gene encoding the KAP1-3 protein (KRTAP1-3) has been described in goats, but little is known about sequence variation in this gene and if it affects cashmere fibre traits. In this study, we used a polymerase chain reaction-single strand conformation polymorphism (PCR-SSCP) technique to screen for nucleotide sequence variatio ...
DOI:
10.1016/j.gene.2022.146341

19. Whole-genome sequencing and functional analysis of a novel chitin-degrading strain Rhodococcus sp. 11-3

Author:
Yu Xiao; Haiqiang Lu; Yang Liu; Yaxin Sang; Jilu Sun
Source:
Journal of bioscience and bioengineering 2022 pp. -
ISSN:
1389-1723
Subject:
nucleotide sequences,   etc   ; chitin; chitin deacetylase; chitinase; gene ontology; genes;     Show all 6 Subjects
Abstract:
... Chitin is the second most abundant polysaccharide in nature. Therefore, how to utilize the resource is an important issue. Rhodococcus sp. 11–3 is a strain with high chitin deacetylase (CDA) activity. In the present study, we used a combined Illumina and PacBio sequencing strategy to assemble the whole genome sequence of this strain. The genome of Rhodococcus sp. 11–3 was 5,627,661 bp in size and ...
DOI:
10.1016/j.jbiosc.2022.04.010

20. G-quadruplex-selective iridium(III) complex as a novel electrochemiluminescence probe for switch-on assay of double-stranded DNA

Author:
Shujie Wu; Songen Wang; Zongbing Li; Chun Wu; Dik-Lung Ma; Xiangmin Miao
Source:
Analytical and bioanalytical chemistry 2022 v.414 no.13 pp. 3755-3763
ISSN:
1618-2642
Subject:
nucleotide sequences,   etc   ; DNA; analytical chemistry; electrochemiluminescence; electrodes; gold; iridium; thiols;     Show all 8 Subjects
Abstract:
... In this work, we synthesized an iridium(III) complex and studied its selective ability to interact with a specific G-quadruplex DNA sequence (GTGGGTAGGGCGGGTTGG). Results showed that the iridium(III) complex exhibits high selectivity for the G-quadruplex DNA and could be used as an efficient electrochemiluminescence (ECL) probe in a switch-on assay format for the detection of double-stranded DNA ( ...
DOI:
10.1007/s00216-022-04018-2