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1. 80 Biallelic CRISPR-Cas9 editing of gene associated with coat colour in microinjected bovine zygotes reaching the blastocyst stage

Author:
M. Poirier; D. Miskel; F. Rings; K. Schellander; M. Hoelker
Source:
Reproduction, fertility, and development 2019 v.31 no.1 pp. 165
ISSN:
1031-3613
Subject:
Holstein; RNA; blastocyst; cattle; clones; color; early development; embryogenesis; exons; fluorescence; gene editing; green fluorescent protein; nucleases; oocytes; phenotype; plasmids; polymerase chain reaction; ribonucleoproteins; slaughterhouses; survival rate; transcription (genetics); zygote
Abstract:
... Successful genome editing of blastocysts using zygote microinjection with transcription activator-like effector nucleases has already been accomplished in cattle as well as a limited number of CRISPR-Cas9 microinjections of zygotes, mostly using RNA. Recent editing of the Pou5f1 gene in bovine blastocysts using CRISPR-Cas9, clarifying its role in embryo development, supports the viability of this ...
DOI:
10.1071/RDv31n1Ab80

2. A Rapid and Sensitive Reverse Transcription–Loop-Mediated Isothermal Amplification (RT-LAMP) Assay for the Detection of Indian Citrus Ringspot Virus

Author:
Amol D. Kokane; Sunil B. Kokane; Ashish J. Warghane; Mrugendra G. Gubyad; Ashwani Kumar Sharma; M. Krishna Reddy; Dilip Kumar Ghosh
Source:
Plant disease 2021 v.105 no.05 pp. 1346-1355
ISSN:
0191-2917
Subject:
Citrus; Indian citrus ringspot virus; RNA; coat proteins; color; cost effectiveness; cross reaction; genes; pathogens; quarantine; rapid methods; reverse transcriptase polymerase chain reaction; reverse transcription loop-mediated isothermal amplification; India
Abstract:
... Indian citrus ringspot virus (ICRSV) is a devastating pathogen that has a particularly deleterious effect on the ‘Kinnow mandarin’, a commercial citrus crop cultivated in the northwest of India. ICRSV belongs to the Mandarivirus genus within the family of Alphaflexiviridae and has a positive sense single-stranded RNA (ssRNA) genome consisting of six open reading frames (ORFs). Severe cases of ICRS ...
DOI:
10.1094/PDIS-06-20-1349-RE

3. A basic helix-loop-helix transcription factor DvIVS determines flower color intensity in cyanic dahlia cultivars

Author:
Sho Ohno; Ayumi Deguchi; Munetaka Hosokawa; Fumi Tatsuzawa; Motoaki Doi
Source:
Planta 2013 v.238 no.2 pp. 331-343
ISSN:
0032-0935
Subject:
anthocyanins; basic helix-loop-helix transcription factors; cultivars; structural genes; corolla; flavones; chalcones; Dahlia pinnata; transcription (genetics); genotype; color; promoter regions
Abstract:
... The study was aimed to identify the factors that regulate the intensity of flower color in cyanic dahlia (Dahlia variabilis), using fifteen cultivars with different color intensities in their petals. The cultivars were classified into three groups based on their flavonoid composition: ivory white cultivars with flavones; purple and pink cultivars with flavones and anthocyanins; and red cultivars w ...
DOI:
10.1007/s00425-013-1897-x
PubMed:
23689377

4. A fast extraction-free isothermal LAMP assay for detection of SARS-CoV-2 with potential use in resource-limited settings

Author:
Kathleen Gärtner; Harry Meleke; Mercy Kamdolozi; David Chaima; Lyson Samikwa; Mary Paynter; Maggie Nyirenda Nyang’Wa; Elaine Cloutman-Green; Eleni Nastouli; Nigel Klein; Tonney Nyirenda; Chisomo Msefula; Dagmar G. Alber
Source:
Virology journal 2022 v.19 no.1 pp. 77
ISSN:
1743-422X
Subject:
RNA; Severe acute respiratory syndrome coronavirus 2; color; cost effectiveness; detection limit; equipment; hospitals; loop-mediated isothermal amplification; phosphates; quantitative polymerase chain reaction; reverse transcription; virology; Malawi
Abstract:
... BACKGROUND: To retain the spread of SARS-CoV-2, fast, sensitive and cost-effective testing is essential, particularly in resource limited settings (RLS). Current standard nucleic acid-based RT-PCR assays, although highly sensitive and specific, require transportation of samples to specialised laboratories, trained staff and expensive reagents. The latter are often not readily available in low- and ...
DOI:
10.1186/s12985-022-01800-7

5. A novel technology for the one-step detection of prune dwarf virus: Colorimetric reverse transcription loop-mediated isothermal amplification assay

Author:
Ali Çelik
Source:
Crop protection 2022 v.155 pp. 105910
ISSN:
0261-2194
Subject:
Apple mosaic virus; Prune dwarf virus; Prunus avium; Prunus necrotic ringspot virus; RNA; coat proteins; color; colorimetry; detection limit; genome; genomics; monitoring; plant protection; reverse transcription loop-mediated isothermal amplification; technology
Abstract:
... A one-step colorimetric reverse transcription loop-mediated isothermal amplification (RT-LAMP) assay was developed to target the coat protein region of genomic RNA of prune dwarf virus (PDV). WarmStart 2X Master Mix from NEB (New England Biolabs) was used for naked eye observation of positive LAMP reactions, where the changing in color from pink to yellowish indicates a positive result. The detect ...
DOI:
10.1016/j.cropro.2022.105910

6. A sequence-specific plasmonic loop-mediated isothermal amplification assay with orthogonal color readouts enabled by CRISPR Cas12a

Author:
Rongxing Zhou; Yongya Li; Tianyu Dong; Yanan Tang; Feng Li
Source:
Chemical communications 2020 v.56 no.24 pp. 3536-3538
ISSN:
1364-548X
Subject:
RNA; chemical compounds; chemical reactions; color; gene editing; loop-mediated isothermal amplification; signal transduction
Abstract:
... Herein, we introduce a sequence-specific plasmonic loop-mediated isothermal amplification (LAMP) assay with dual, complementary color readouts enabled by CRISPR Cas12a. Using this assay, any double-stranded LAMP amplicon containing a 5′-TTN PAM sequence can be recognized by Cas12a through a specific CRISPR RNA. The signal transduction is achieved using two orthogonal plasmonic systems mediated by ...
DOI:
10.1039/d0cc00397b

7. A smartphone-based visual biosensor for CRISPR-Cas powered SARS-CoV-2 diagnostics

Author:
Long Ma; Lijuan Yin; Xiaoyan Li; Si Chen; Lei Peng; Guozhen Liu; Shengying Ye; Wenlu Zhang; Shuli Man
Source:
Biosensors & bioelectronics 2022 v.195 pp. 113646
ISSN:
0956-5663
Subject:
COVID-19 infection; CRISPR-Cas systems; Pseudoviridae; RNA; Severe acute respiratory syndrome coronavirus 2; biosensors; color; cross reaction; detection limit; diagnostic techniques; genes; mobile telephones; nanogold; pandemic; single-stranded DNA
Abstract:
... The pandemic of coronavirus disease 2019 (COVID-19) resulted from novel severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2) has become a worldwide concern. It is imperative to develop rapid, sensitive, and specific biosensing methods. Herein, we developed a CRISPR-Cas12a powered visual biosensor with a smartphone readout for ultrasensitive and selective detection of SARS-CoV-2. Simply, th ...
DOI:
10.1016/j.bios.2021.113646

8. Aggregation-induced emission: phenomenon, mechanism and applications

Author:
Yuning Hong; Jacky W. Y. Lam; Ben Zhong Tang
Source:
Chemical communications 2009 v. no.29 pp. 4332-4353
ISSN:
1364-548X
Subject:
DNA; RNA; chemical compounds; chemical reactions; color; fluorescence; immunoassays; light emitting diodes; micelles; nanomaterials; pH; phospholipids; phosphorescence; polarized light; polyacrylamide gel electrophoresis; sugars; temperature; viscosity
Abstract:
... It is textbook knowledge that chromophore aggregation generally quenches light emission. In this feature article, we give an account on how we observed an opposite phenomenon termed aggregation-induced emission (AIE) and identified the restriction of intramolecular rotation as a main cause for the AIE effect. Based on the mechanistic understanding, we developed a series of new fluorescent and phos ...
DOI:
10.1039/b904665h

9. An Agrobacterium‐mediated stable transformation technique for the hornwort model Anthoceros agrestis

Author:
Eftychios Frangedakis; Manuel Waller; Tomoaki Nishiyama; Hirokazu Tsukaya; Xia Xu; Yuling Yue; Michelle Tjahjadi; Andika Gunadi; Joyce Van Eck; Fay‐Wei Li; Péter Szövényi; Keiko Sakakibara
Source:
The new phytologist 2021 v.232 no.3 pp. 1488-1505
ISSN:
0028-646X
Subject:
RNA; color; fluorescence; genetic engineering; genetically modified organisms; models; phylogeny; plasma membrane; promoter regions; symbiosis; thallus
Abstract:
... Despite their key phylogenetic position and their unique biology, hornworts have been widely overlooked. Until recently there was no hornwort model species amenable to systematic experimental investigation. Anthoceros agrestis has been proposed as the model species to study hornwort biology. We have developed an Agrobacterium‐mediated method for the stable transformation of A. agrestis, a hornwort ...
DOI:
10.1111/nph.17524

10. An improved method to extract DNA from mango Mangifera indica

Author:
Mohammad Uddin; Wenli Sun; Xinhua He; Jaime Teixeira da Silva; Qi Cheng
Source:
Biologia 2013 v.69 no.2 pp. 133-138
ISSN:
1336-9563
Subject:
DNA; DNA fingerprinting; Mangifera indica; RNA; color; genetic variation; glucose; grapes; guavas; leaves; litchis; mangoes; pears; perennials; polymerase chain reaction; polyphenols; polysaccharides; secondary metabolites; sugarcane; viscosity
Abstract:
... High quality genomic DNA is the first step in the development of DNA-based markers for fingerprinting and genetic diversity of crops, including mango (Mangifera indica L.), a woody perennial. Poor quality genomic DNA hinders the successful application of analytical DNA-based tools. Standard protocols for DNA extraction are not suitable for mango since the extracted genomic DNA often contains secon ...
DOI:
10.2478/s11756-013-0311-2

11. An internal amplification control for quantitative nucleic acid analysis using nanoparticle-based dipstickbiosensors

Author:
Huan Huang; Li Jin; Xian Yang; Qinxin Song; Bingjie Zou; Shiwen Jiang; Lizhou Sun; Guohua Zhou
Source:
Biosensors & bioelectronics 2013 v.42 pp. 261-266
ISSN:
0956-5663
Subject:
DNA; RNA; biosensors; blood serum; color; medical treatment; monitoring; nanoparticles; pathogens; patients; polymerase chain reaction; quantitative analysis; viruses
Abstract:
... Quantitative analysis of virus nucleic acids is essential for monitoring the efficacy of medical treatment based on the copy numbers of virus's RNA or DNA in blood. To quantitatively detect virus nucleic acids in blood, here an internal amplification control (IAC) coupled with a nanoparticle-based DNA biosensor was proposed. The IACs with a specific sequence were designed and spiked into serum bef ...
DOI:
10.1016/j.bios.2012.10.078

12. Anthocyanin synthesis in orange carrot cv. Danvers is activated by transgene expression of the transcription factors DcMYB113_NB and DcEGL1_NB from black carrot cv. Nightbird

Author:
Shrikant Sharma; Giuseppe Dionisio; Inger B. Holme; Tsaneta Dzhanfezova; Bjarne Joernsgaard; Henrik Brinch-Pedersen
Source:
Plant molecular biology 2021 v.106 no.3 pp. 259-270
ISSN:
0167-4412
Subject:
RNA; anthocyanins; carrots; color; cultivars; gene expression; industry; molecular biology; promoter regions
Abstract:
... Black carrots are potent sources of anthocyanin for the natural food color industry as their anthocyanins contain very high percentages of acylated anthocyanins which are much more stable than non-acylated anthocyanins. Anthocyanins are synthesized by a specific branch of the phenylpropanoid pathway activated by a triad of R2R3-MYB, bHLH and WD40 transcription factors (TFs). Recent studies in blac ...
DOI:
10.1007/s11103-021-01141-z

13. Antibacterial effect and mechanisms of action of 460–470 nm light-emitting diode against Listeria monocytogenes and Pseudomonas fluorescens on the surface of packaged sliced cheese

Author:
Jeong-Eun Hyun; Sun-Young Lee
Source:
Food microbiology 2019 pp. -
ISSN:
0740-0020
Subject:
Listeria monocytogenes; Pseudomonas fluorescens; RNA; agar; antibacterial properties; cell membranes; cheeses; color; foodborne illness; light emitting diodes; lighting; mechanism of action; metabolism; pathogens; peptidoglycans; polypropylenes; refrigeration; shelf life; spoilage bacteria; temperature; transmission electron microscopy
Abstract:
... The aim of this study was to investigate the antibacterial effect of 460–470 nm light-emitting diode (LED460–470nm) illumination against pathogens and spoilage bacteria on the surface of agar media and packaged sliced cheese. LED460–470nm illumination highly inhibited the growth of Listeria monocytogenes and Pseudomonas fluorescens on agar media covered with oriented polypropylene (OPP) film (thic ...
DOI:
10.1016/j.fm.2019.103314

14. Aptamer–nanoparticle-based chemiluminescence for p53 protein

Author:
N. Shwetha; L.S. Selvakumar; M.S. Thakur
Source:
Analytical biochemistry 2013 v.441 no.1 pp. 73-79
ISSN:
0003-2697
Subject:
RNA; biosensors; catalytic activity; chemiluminescence; color; colorimetry; desorption; detection limit; nanogold; oligonucleotides; salts; tumor suppressor proteins
Abstract:
... A simple colorimetric biosensing technique based on the interaction of gold nanoparticles (AuNPs) with the aptamer was developed for detection of p53, a tumor suppressor protein, in the current study. Aggregation of AuNPs was induced by desorption of the p53 binding RNA aptamer from the surface of AuNPs as a result of the aptamer target interaction leading to the color change of AuNPs from red to ...
DOI:
10.1016/j.ab.2013.06.006

15. Assessing changes in vascular permeability in a hamster model of viral hemorrhagic fever

Author:
Brian B Gowen; Justin G Julander; Nyall R London; Min-Hui Wong; Deanna Larson; John D Morrey; Dean Y Li; Mike Bray
Source:
Virology journal 2010 v.7 no.1 pp. 240
ISSN:
1743-422X
Subject:
Cali mammarenavirus; RNA; animal models; blood serum; color; death; dyes; fever; hematocrit; hypotension; intravenous injection; permeability; serum albumin; viremia; virus replication
Abstract:
... BACKGROUND: A number of RNA viruses cause viral hemorrhagic fever (VHF), in which proinflammatory mediators released from infected cells induce increased permeability of the endothelial lining of blood vessels, leading to loss of plasma volume, hypotension, multi-organ failure, shock and death. The optimal treatment of VHF should therefore include both the use of antiviral drugs to inhibit viral r ...
DOI:
10.1186/1743-422X-7-240

16. Assessment of Performance Ability of Three Diagnostic Methods for Detection of Potato Leafroll Virus (PLRV) Using Different Visualizing Systems

Author:
Mohammad Amin Almasi; Aboubakr Moradi; Jaber Nasiri; Soraya Karami; Mojtaba Nasiri
Source:
Applied biochemistry and biotechnology 2012 v.168 no.4 pp. 770-784
ISSN:
0273-2289
Subject:
coat proteins; risk; diagnostic techniques; colorimetry; conserved sequences; reverse transcriptase polymerase chain reaction; cross contamination; Potato leafroll virus; reverse transcription; genes; color; dyes; RNA
Abstract:
... To diminish the time required for some diagnostic assays including reverse transcription PCR (RT-PCR), reverse transcription loop-mediated isothermal amplification (RT-LAMP; due to mainly RNA extraction step) and also DAS-ELISA into a minimum level, an innovative immunocapture RT-LAMP (IC–RT-LAMP) and immunocapture reverse transcription (IC/RT-PCR) protocol on the basis of Potato Leafroll virus (P ...
DOI:
10.1007/s12010-012-9818-1
PubMed:
22907514

17. Biochemical and microstructural assessment of minimally processed peaches subjected to high-pressure processing: Implications on the freshness condition

Author:
G.I. Denoya; M.S. Nanni; N.M. Apóstolo; S.R. Vaudagna; G.A. Polenta
Source:
Innovative food science & emerging technologies 2016 v.36 pp. 212-220
ISSN:
1466-8564
Subject:
RNA; anaerobiosis; color; edible films; enzyme activity; enzymes; flavor; freshness; fruits; heat treatment; high pressure treatment; irradiation; microstructure; peaches; texture; tissues; viability
Abstract:
... Since the condition of freshness is closely linked to the definition of minimally processed fruits, it is generally assumed that they should be constituted by living tissues. High-pressure processing (HPP) has been proven to be successful in maintaining the freshness of foods, although the integrity of some tissues could be altered. The aim of this work was to assess different biochemical and micr ...
DOI:
10.1016/j.ifset.2016.06.026

18. Blue aquarium background is appropriate for rearing male Siamese fighting fish (Betta splendens)

Author:
Suktianchai Saekhow; Karun Thongprajukaew; Wutiporn Phromkunthong
Source:
Aquaculture international 2019 v.27 no.3 pp. 891-903
ISSN:
0967-6120
Subject:
RNA; actin; amylases; aquariums; body weight; carboxylic ester hydrolases; carcass composition; chymotrypsin; color; crude protein; diet; enzyme activity; feed conversion; glass; growth performance; lipids; males; muscles; myosin; ornamental fish; pepsin; protein efficiency ratio; rearing; specific growth rate; trypsin
Abstract:
... The effects of five aquarium backgrounds (transparent, white, red, blue, and black) on growth, feed utilization, digestive enzyme activities, skin coloration, muscle parameters, and carcass composition were investigated in solid red male Siamese fighting fish (Betta splendens). The fish (1.13 ± 0.01 g initial body weight) were distributed individually into glass aquaria (3.5 cm width × 8 cm length ...
DOI:
10.1007/s10499-019-00374-6

19. Bovine sire selection based on maintenance energy affects muscle fiber type and meat color of F1 progeny

Author:
K. J. Thornton; C. M. Welch; L. C. Davis; M. E. Doumit; R. A. Hill; G. K. Murdoch
Source:
Journal of animal science 2012 v.90 no.5 pp. 1617-1627
ISSN:
0021-8812
Subject:
Red Angus; beef cattle; color; correlation; energy; gene expression; heifers; meat; meat quality; messenger RNA; muscle fibers; progeny; raw meat; sires; steers
Abstract:
... A total of 42 F1 Red Angus progeny from sires divergent in maintenance energy (MEM) EPD were analyzed to determine whether selecting for sire MEM would alter end-product meat quality. Data from animals were grouped based on the divergence of the MEM EPD of their sire from the Red Angus Association-reported breed average and defined as either high or low, the assumption being that high-MEM cattle a ...
DOI:
10.2527/jas.2011-4678
PubMed:
22147475

20. CRISPR-Cas9 enrichment and long read sequencing for fine mapping in plants

Author:
Elena López-Girona; Marcus W. Davy; Nick W. Albert; Elena Hilario; Maia E. M. Smart; Chris Kirk; Susan J. Thomson; David Chagné
Source:
Plant methods 2020 v.16 no.1 pp. 121
ISSN:
1746-4811
Subject:
CRISPR-Cas systems; DNA; Malus domestica; Poecilia; RNA; apples; biologists; color; depth; flow; fruits; genes; genome walking; genomics; germplasm; haplotypes; heterozygosity; length; loci; molecular weight; nanopores; transcription factors
Abstract:
... BACKGROUND: Genomic methods for identifying causative variants for trait loci applicable to a wide range of germplasm are required for plant biologists and breeders to understand the genetic control of trait variation. RESULTS: We implemented Cas9-targeted sequencing for fine-mapping in apple, a method combining CRISPR-Cas9 targeted cleavage of a region of interest, followed by enrichment and long ...
DOI:
10.1186/s13007-020-00661-x