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1. Evaluation of the chitin-binding dye Congo red as a selection agent for the isolation, classification, and enumeration of ascomycete yeasts

Author:
Linder, Tomas
Source:
Archives of microbiology 2018 v.200 no.4 pp. 671-675
ISSN:
0302-8933
Subject:
phenotype,   etc   ; Ascomycota; dyes; yeasts;     Show all 4 Subjects
Abstract:
... Thirty-nine strains of ascomycete yeasts representing 35 species and 33 genera were tested for their ability to grow on solid agar medium containing increasing concentrations of the chitin-binding dye Congo red. Six strains were classified as hypersensitive (weak or no growth at 10 mg/l Congo red), five were moderately sensitive (weak or no growth at 50 mg/l), three were moderately tolerant (weak ...
DOI:
10.1007/s00203-018-1498-y

2. The emerging roles for the chromatin structure regulators CTCF and cohesin in neurodevelopment and behavior

Author:
Davis, Liron; Onn, Itay; Elliott, Evan
Source:
Cellular and molecular life sciences 2018 v.75 no.7 pp. 1205-1214
ISSN:
1420-682X
Subject:
phenotype,   etc   ; chromatin; humans; neurodevelopment;     Show all 4 Subjects
Abstract:
... Recent genetic and technological advances have determined a role for chromatin structure in neurodevelopment. In particular, compounding evidence has established roles for CTCF and cohesin, two elements that are central in the establishment of chromatin structure, in proper neurodevelopment and in regulation of behavior. Genetic aberrations in CTCF, and in subunits of the cohesin complex, have bee ...
DOI:
10.1007/s00018-017-2706-7

3. Raven food calls indicate sender’s age and sex

Author:
Boeckle, Markus; Szipl, Georgine; Bugnyar, Thomas
Source:
Frontiers in zoology 2018 v.15 no.1 pp. 5
ISSN:
1742-9994
Subject:
phenotype,   etc   ; acoustic properties; animals; vocalization;     Show all 4 Subjects
Abstract:
... BACKGROUND: Acoustic parameters of animal signals have been shown to correlate with various phenotypic characteristics of the sender. These acoustic characteristics can be learned and categorized and thus are a basis for perceivers’ recognition abilities. One of the most demanding capacities is individual recognition, achievable only after repeated interactions with the same individual. Still, cla ...
DOI:
10.1186/s12983-018-0255-z

4. Complexity-aware simple modeling

Author:
Gómez-Schiavon, Mariana; El-Samad, Hana
Source:
Current opinion in microbiology 2018 v.45 pp. 47-52
ISSN:
1369-5274
Subject:
phenotype,   etc   ; insulating materials; mathematical models;     Show all 3 Subjects
Abstract:
... Mathematical models continue to be essential for deepening our understanding of biology. On one extreme, simple or small-scale models help delineate general biological principles. However, the parsimony of detail in these models as well as their assumption of modularity and insulation make them inaccurate for describing quantitative features. On the other extreme, large-scale and detailed models c ...
DOI:
10.1016/j.mib.2018.01.004

5. Low Phosphate Puts Auxin in the Root Hairs

Author:
Parry, Geraint
Source:
Trends in plant science 2018 v.23 no.10 pp. 845-847
ISSN:
1360-1385
Subject:
phenotype,   etc   ; auxins; phosphates; root hairs;     Show all 4 Subjects
Abstract:
... The molecular changes that allow plant roots to response to low phosphate levels are poorly understood. A series of three papers investigate this phenomenon and reveal which components of the auxin response are key for transmitting the phosphate signal into changes in root hair phenotypes. ...
DOI:
10.1016/j.tplants.2018.07.009

6. Author Correction: Double trisomy (XXX+21 karyotype) in a six-year-old girl with down phenotype

Author:
Vergara-Mendez, LauraDaniela; Talero-Gutiérrez, Claudia; Velez-Van-Meerbeke, Alberto
Source:
Journal of genetics 2018 v.97 no.2 pp. 585
ISSN:
0022-1333
Subject:
phenotype,   etc   ; girls; karyotyping; patients; trisomics;     Show all 5 Subjects
Abstract:
... In both the abstract and introduction, the karyotype of a patient with double trisomy is described as ‘47, XXX, +21’, where it should read as ‘48, XXX, +21’. ...
DOI:
10.1007/s12041-018-0952-6

7. Indicators of transitions in biological systems

Author:
Clements, Christopher F.; Ozgul, Arpat
Source:
Ecology letters 2018 v.21 no.6 pp. 905-919
ISSN:
1461-023X
Subject:
phenotype,   etc   ; autocorrelation; biodiversity; models; prediction;     Show all 5 Subjects
Abstract:
... In the face of global biodiversity declines, predicting the fate of biological systems is a key goal in ecology. One popular approach is the search for early warning signals (EWSs) based on alternative stable states theory. In this review, we cover the theory behind nonlinearity in dynamic systems and techniques to detect the loss of resilience that can indicate state transitions. We describe the ...
DOI:
10.1111/ele.12948

8. Viable but non‐culturable and persistence describe the same bacterial stress state

Author:
Kim, Jun‐Seob; Chowdhury, Nityananda; Yamasaki, Ryota; Wood, Thomas K.
Source:
Environmental microbiology 2018 v.20 no.6 pp. 2038-2048
ISSN:
1462-2912
Subject:
phenotype,   etc   ; Escherichia coli; bacteria; cytosol;     Show all 4 Subjects
Abstract:
... Bacteria are often thought of as having two dormant phenotypes: the viable but non‐culturable (VBNC) state and the persister state. Here we investigate the relatedness of the two stress‐induced phenotypes at the single‐cell level and examine cell morphology and quantify cell resuscitation. Using the classic starvation conditions to create VBNC cells, we found that the majority of the remaining Esc ...
DOI:
10.1111/1462-2920.14075

9. Task-driven active sensing framework applied to leaf probing

Author:
Foix, Sergi; Alenyà, Guillem; Torras, Carme
Source:
Computers and electronics in agriculture 2018 v.147 pp. 166-175
ISSN:
0168-1699
Subject:
phenotype,   etc   ; grid maps; leaves; methodology;     Show all 4 Subjects
Abstract:
... This article presents a new method for actively exploring a 3D workspace with the aim of localizing relevant regions for a given task. Our method encodes the exploration route in a multi-layer occupancy grid map. This map, together with a multiple-view estimator and a maximum-information-gain gathering approach, incrementally provide a better understanding of the scene until reaching the task term ...
DOI:
10.1016/j.compag.2018.01.020

10. Reconsidering the classification of sweet taste liker phenotypes: A methodological review

Author:
Iatridi, Vasiliki; Hayes, John E.; Yeomans, Martin R.
Source:
Food quality and preference 2019 v.72 pp. 56-76
ISSN:
0950-3293
Subject:
phenotype,   etc   ; alcohols; behavior disorders; food intake; hedonic scales; obesity; protocols; sensory evaluation; sucrose; sweetness; taste;     Show all 11 Subjects
Abstract:
... Human ingestive behavior depends on myriad factors, including both sensory and non-sensory determinants. Of the sensory determinants, sweet taste is a powerful stimulus and liking for sweetness is widely accepted as an innate human trait. However, the universality of sweet-liking has been challenged. Sub-groups exhibiting strong liking (sweet likers) or having aversive responses to sweet taste (sw ...
DOI:
10.1016/j.foodqual.2018.09.001

11. Uncovering the hidden half of plants using new advances in root phenotyping

Author:
Atkinson, Jonathan A; Pound, Michael P; Bennett, Malcolm J; Wells, Darren M
Source:
Current opinion in biotechnology 2019 v.55 pp. 1-8
ISSN:
0958-1669
Subject:
phenotype,   etc   ; automation; climate change; crop yield; crops; food security; image analysis; nutrient use efficiency; population growth;     Show all 9 Subjects
Abstract:
... Major increases in crop yield are required to keep pace with population growth and climate change. Improvements to the architecture of crop roots promise to deliver increases in water and nutrient use efficiency but profiling the root phenome (i.e. its structure and function) represents a major bottleneck. We describe how advances in imaging and sensor technologies are making root phenomic studies ...
DOI:
10.1016/j.copbio.2018.06.002

12. Can epigenetics translate environmental cues into phenotypes?

Author:
Norouzitallab, Parisa; Baruah, Kartik; Vanrompay, Daisy; Bossier, Peter
Source:
The Science of the total environment 2019 v.647 pp. 1281-1293
ISSN:
0048-9697
Subject:
phenotype,   etc   ; Mendelian inheritance; adults; environmental factors; environmental impact; epigenetics; genetic variation; introgression; natural selection;     Show all 9 Subjects
Abstract:
... Living organisms are constantly exposed to wide ranges of environmental cues. They react to these cues by undergoing a battery of phenotypic responses, such as by altering their physiological and behavioral traits, in order to adapt and survive in the changed environments. The adaptive response of a species induced by environmental cues is typically thought to be associated with its genetic divers ...
DOI:
10.1016/j.scitotenv.2018.08.063

13. Multiplex navigation of global regulatory networks (MINR) in yeast for improved ethanol tolerance and production

Author:
Liu, Rongming; Liang, Liya; Choudhury, Alaksh; Garst, Andrew D.; Eckert, Carrie A.; Oh, Eun Joong; Winkler, James; Gill, Ryan T.
Source:
Metabolic engineering 2019 v.51 pp. 50-58
ISSN:
1096-7176
Subject:
phenotype,   etc   ; diploidy; ethanol; gene expression; glucose tolerance; mutants; mutation; regulator genes; synthetic biology; yeasts;     Show all 10 Subjects
Abstract:
... Multiplex navigation of global regulatory networks (MINR) is an approach for combinatorially reprogramming gene expression to manipulate complex phenotypes. We designed, constructed, and mapped MINR libraries containing 43,020 specific mutations in 25 regulatory genes expected to perturb the yeast regulatory network. We selected growth competition experiments for library mutants conferring increas ...
DOI:
10.1016/j.ymben.2018.07.007

14. Correction to: Bayesian functional regression as an alternative statistical analysis of high-throughput phenotyping data of modern agriculture

Author:
Montesinos-López, Abelardo; Montesinos-López, Osval A.; de los Campos, Gustavo; Crossa, José; Burgueño, Juan; Luna-Vazquez, Francisco Javier
Source:
Plant methods 2018 v.14 no.1 pp. 57
ISSN:
1746-4811
Subject:
phenotype,   etc   ; crop production; crops; statistical analysis;     Show all 4 Subjects
Abstract:
... Unfortunately, in the original version [1] of this article, a funder note was missed out in the acknowledgement. ...
DOI:
10.1186/s13007-018-0321-8

15. The use of plant models in deep learning: an application to leaf counting in rosette plants

Author:
Ubbens, Jordan; Cieslak, Mikolaj; Prusinkiewicz, Przemyslaw; Stavness, Ian
Source:
Plant methods 2018 v.14 no.1 pp. 6
ISSN:
1746-4811
Subject:
phenotype,   etc   ; algorithms; data collection; leaves; neural networks;     Show all 5 Subjects
Abstract:
... Deep learning presents many opportunities for image-based plant phenotyping. Here we consider the capability of deep convolutional neural networks to perform the leaf counting task. Deep learning techniques typically require large and diverse datasets to learn generalizable models without providing a priori an engineered algorithm for performing the task. This requirement is challenging, however, ...
DOI:
10.1186/s13007-018-0273-z

16. Resource allocation and metabolism: the search for governing principles

Author:
Basan, Markus
Source:
Current opinion in microbiology 2018 v.45 pp. 77-83
ISSN:
1369-5274
Subject:
phenotype,   etc   ; metabolism; microbiology; models; prediction; resource allocation;     Show all 6 Subjects
Abstract:
... Elucidating strategies of resource allocation and metabolism is crucial for a better understanding of microbial phenotypes. In particular, uncovering the governing principles underlying these processes would be a crucial step for achieving a central aim of systems microbiology, which is to quantitatively predict phenotypes of microbial cells or entire populations in diverse conditions. Here, some ...
DOI:
10.1016/j.mib.2018.02.008

17. Design and characterization of Zweimab and Doppelmab, high affinity dual antagonistic anti-TSLP/IL13 bispecific antibodies

Author:
Venkataramani, Sathyadevi; Low, Sarah; Weigle, Bernd; Dutcher, Darrin; Jerath, Kavita; Menzenski, Monica; Frego, Lee; Truncali, Kris; Gupta, Pankaj; Kroe-Barrett, Rachel; Ganesan, Rajkumar; Singh, Sanjaya; Erb, Klaus J.
Source:
Biochemical and biophysical research communications 2018 v.504 no.1 pp. 19-24
ISSN:
0006-291X
Subject:
phenotype,   etc   ; antibodies; asthma; cytokines; patients; therapeutics;     Show all 6 Subjects
Abstract:
... Patients with severe Th2 type asthma often have a steroid resistant phenotype and are prone to acute exacerbations. Current novel therapies have only marginal therapeutic effects. One of the hypotheses for lack of major efficacy in most patients is targeting only one redundant pathway leaving others active. Hence, we have designed and developed novel highly potent bispecific anti-TSLP/IL13 antibod ...
DOI:
10.1016/j.bbrc.2018.08.064

18. Synthetic Lethal Networks for Precision Oncology: Promises and Pitfalls

Author:
Shen, John Paul; Ideker, Trey
Source:
Journal of molecular biology 2018 v.430 no.18 pp. 2900-2912
ISSN:
0022-2836
Subject:
phenotype,   etc   ; drugs; genes; tumor suppressor proteins;     Show all 4 Subjects
Abstract:
... Synthetic lethal interactions, in which the simultaneous loss of function of two genes produces a lethal phenotype, are being explored as a means to therapeutically exploit cancer-specific vulnerabilities and expand the scope of precision oncology. Currently, three Food and Drug Administration-approved drugs work by targeting the synthetic lethal interaction between BRCA1/2 and PARP. This review e ...
DOI:
10.1016/j.jmb.2018.06.026

19. Cellulose synthesis during cell plate assembly

Author:
Chen, Hsiang‐Wen; Persson, Staffan; Grebe, Markus; McFarlane, Heather E.
Source:
Physiologia plantarum 2018 v.164 no.1 pp. 17-26
ISSN:
0031-9317
Subject:
phenotype,   etc   ; cell division; cell walls; cellulose; mutants;     Show all 5 Subjects
Abstract:
... The plant cell wall surrounds and protects the cells. To divide, plant cells must synthesize a new cell wall to separate the two daughter cells. The cell plate is a transient polysaccharide‐based compartment that grows between daughter cells and gives rise to the new cell wall. Cellulose constitutes a key component of the cell wall, and mutants with defects in cellulose synthesis commonly share ph ...
DOI:
10.1111/ppl.12703

20. Primary Cilia Reconsidered in the Context of Ciliopathies: Extraciliary and Ciliary Functions of Cilia Proteins Converge on a Polarity theme?

Author:
Hua, Kiet; Ferland, Russell J.
Source:
BioEssays 2018 v.40 no.8 pp. e1700132
ISSN:
0265-9247
Subject:
phenotype,   etc   ; cell polarity; cilia; organelles; proteins;     Show all 5 Subjects
Abstract:
... Once dismissed as vestigial organelles, primary cilia have garnered the interest of scientists, given their importance in development/signaling, and for their implication in a new disease category known as ciliopathies. However, many, if not all, “cilia” proteins also have locations/functions outside of the primary cilium. These extraciliary functions can complicate the interpretation of a particu ...
DOI:
10.1002/bies.201700132