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1. A new genus of lime treefrogs (Anura: Hylidae: Sphaenorhynchini)

Author:
Araujo-Vieira, Katyuscia; Luna, Maria Celeste; Caramaschi, Ulisses; Haddad, Célio F.B.
Source:
Zoologischer Anzeiger 2020 v.286 pp. 81-89
ISSN:
0044-5231
Subject:
phenotype,   etc   ; Hylidae; new genus; phylogeny;     Show all 4 Subjects
Abstract:
... The hylid tribe Sphaenorhynchini is composed of the single genus Sphaenorhynchus. A recent total evidence phylogenetic analysis of all the 15 currently described species of Sphaenorhynchus recovered S. pauloalvini as the earliest diverging taxon of this genus. Sphaenorhynchus pauloalvini is diagnosed by molecular evidence and several phenotypic characters that differentiate it from the remaining s ...
DOI:
10.1016/j.jcz.2020.04.002

2. Plant pangenomics: approaches, applications and advancements

Author:
Furaste Danilevicz, Monica; Danilevicz, Monica Furaste; Tay Fernandez, Cassandria Geraldine; Marsh, Jacob Ian; Bayer, Philipp Emanuel; Edwards, David
Source:
Current opinion in plant biology 2020 v.54 pp. 18-25
ISSN:
1369-5266
Subject:
phenotype,   etc   ; biodiversity; genetic variation; genome;     Show all 4 Subjects
Abstract:
... With the assembly of increasing numbers of plant genomes, it is becoming accepted that a single reference assembly does not reflect the gene diversity of a species. The production of pangenomes, which reflect the structural variation and polymorphisms in genomes, enables in depth comparisons of variation within species or higher taxonomic groups. In this review, we discuss the current and emerging ...
DOI:
10.1016/j.pbi.2019.12.005

3. A transmission ratio distortion and the ‘max-4’ ascus phenotype: Do both reflect the same Bateson-Dobzhansky-Muller Incompatibility emerging during trans-species introgression of translocations in Neurospora?

Author:
Rekha, Selvam; Kasbekar, Durgadas P
Source:
Journal of biosciences 2020 v.45 no.1 pp. 24
ISSN:
0250-5991
Subject:
phenotype,   etc   ; Neurospora crassa; ascospores; introgression; mutants; progeny;     Show all 6 Subjects
Abstract:
... The T(EB4)ᴺᵗa, T(IBj5)ᴺᵗa, and T(B362i)ᴺᵗA strains were constructed by introgressing the insertional translocations EB4, IBj5, and B362i from Neurospora crassa into the related species N. tetrasperma. The progeny from crosses of T(IBj5)ᴺᵗa and T(B362i)ᴺᵗA with opposite mating-type derivatives of the standard N. tetrasperma strain 85 exhibited a unique and unprecedented transmission ratio distortio ...
DOI:
10.1007/s12038-020-9994-z

4. Recent advances on constraint-based models by integrating machine learning

Author:
Rana, Pratip; Berry, Carter; Ghosh, Preetam; Fong, Stephen S
Source:
Current opinion in biotechnology 2020 v.64 pp. 85-91
ISSN:
0958-1669
Subject:
phenotype,   etc   ; artificial intelligence; genotype; infancy; simulation models;     Show all 5 Subjects
Abstract:
... Research that meaningfully integrates constraint-based modeling with machine learning is at its infancy but holds much promise. Here, we consider where machine learning has been implemented within the constraint-based modeling reconstruction framework and highlight the need to develop approaches that can identify meaningful features from large-scale data and connect them to biological mechanisms t ...
DOI:
10.1016/j.copbio.2019.11.007

5. even-skipped acts as a pair-rule gene in germ band stages of Tribolium development

Author:
O, Jiyun; Choe, Chong Pyo
Source:
Developmental biology 2020 v.462 no.1 pp. 1-6
ISSN:
0012-1606
Subject:
phenotype,   etc   ; Drosophila; abdomen; genes; insects; periodicity;     Show all 6 Subjects
Abstract:
... The pair-rule gene even-skipped (eve) is essential for insect segmentation, yet its function varies among insect clades. While loss of eve results in typical pair-rule phenotypes in Drosophila, knock-down of eve orthologs shows segmental, gap-like, or asegmental phenotypes in non-Drosophila insects. In Tribolium, knock-down of the eve ortholog (Tc-eve) resulted in a graded phenotypic series rangin ...
DOI:
10.1016/j.ydbio.2020.03.010

6. Acquired ‘Phase Separation’ Underlies Aberrant Cell Fate Control?

Author:
Gao, Yifei; Li, Pilong
Source:
Trends in biochemical sciences 2020 v.45 no.6 pp. 457-458
ISSN:
0968-0004
Subject:
phenotype,   etc   ; chromatin; condensates; epigenetics; gene expression; mutation;     Show all 6 Subjects
Abstract:
... Chromatin readers are important intermediaries linking epigenetic information and biological phenotypes. Many diseases are caused by mutations in epigenetic readers. Recently, a study by Wan et al. uncovered that cancer-associated mutations promote self-association of eleven-nineteen-leukemia protein (ENL), leading to abnormal condensates, elevated gene expression, and impaired cell fate determina ...
DOI:
10.1016/j.tibs.2020.02.007

7. Unfolded Protein Response (UPR) Controls Major Senescence Hallmarks

Author:
Abbadie, Corinne; Pluquet, Olivier
Source:
Trends in biochemical sciences 2020 v.45 no.5 pp. 371-374
ISSN:
0968-0004
Subject:
phenotype,   etc   ; stress response; unfolded protein response;     Show all 3 Subjects
Abstract:
... Senescence is a complex cellular state, which can be considered as a stress response phenotype. However, the mechanisms through which cells acquire and maintain this phenotype are not fully understood. In this paper, it is argued that the unfolded protein response (UPR) may represent a signalling platform that is associated with the major senescence hallmarks. ...
DOI:
10.1016/j.tibs.2020.02.005

8. Patterns of mandibular asymmetries in two types of companion rabbits

Author:
Parés‐Casanova, Pere M.; Cabello, Maria
Source:
Anatomia, histologia, embryologia 2020 v.49 no.2 pp. 227-232
ISSN:
0340-2096
Subject:
phenotype,   etc   ; asymmetry; geometry; morphometry; pets; rabbits;     Show all 6 Subjects
Abstract:
... Developmental instability hypothesis suggests that asymmetric variation can partially reflect the body's inability to buffer environmental and/or genetic perturbations. Fluctuating asymmetry (FA), that is random differences between the left and right sides of body features that are symmetric at the population level, can assess this approach. Another kind of asymmetry is directional asymmetry (DA) ...
DOI:
10.1111/ahe.12517

9. Repeatability but no short‐term plasticity in the web architecture of Latrodectus hesperus western black widow spiders (Araneae: Theridiidae)

Author:
Thompson, Cory H.; Rodríguez, Rafael L.; Sergi, Clinton
Source:
Ethology 2020 v.126 no.3 pp. 313-319
ISSN:
0179-1613
Subject:
phenotype,   etc   ; Latrodectus hesperus; animal behavior; genotype; webs;     Show all 5 Subjects
Abstract:
... A spider's web is an extended phenotype and a direct product of behavior. Variation in web architecture may be the result of individual differences in genotype, environment, or experience. We analyzed variation in the web architecture of western black widow spiders, Latrodectus hesperus, by testing two hypotheses: (a) intrinsic individual differences and (b) plasticity according to experience of t ...
DOI:
10.1111/eth.12972

10. Integration of Flow Cytometry and Single Cell Sequencing

Author:
Andreyev, Dmitry S.; Zybailov, Boris L.
Source:
Trends in biotechnology 2020 v.38 no.2 pp. 133-136
ISSN:
0167-7799
Subject:
phenotype,   etc   ; flow cytometry; genome; mitochondria; transcriptome;     Show all 5 Subjects
Abstract:
... Integrating cytometric analysis of cells, mitochondria, and other polynucleotide-containing biological particles with high-throughput single particle sequencing would provide an ultimate bioanalytical tool, simultaneously assessing phenotype, functionality, genome, and transcriptome of each particle in a large population. Here, we describe how such integration could be performed by adapting existi ...
DOI:
10.1016/j.tibtech.2019.09.002

11. Multiple virus infections on Heterobasidion sp.

Author:
Hantula., Jarkko; Hantula, Jarkko; Mäkelä, Salla; Xu, Ping; Brusila, Veera; Nuorteva, Heikki; Kashif, Muhammad; Hyder, Rafiqul; Vainio, Eeva J.
Source:
Fungal biology 2020 v.124 no.2 pp. 102-109
ISSN:
1878-6146
Subject:
phenotype,   etc   ; Heterobasidion; hosts; mixed infection; mycelium; viruses;     Show all 6 Subjects
Abstract:
... Heterobasidion viruses have previously been shown to affect each other’s transmission and phenotypic effects on their hosts in a complex way. In this work, Heterobasidion parviporum strains hosting five coinfecting viruses simultaneously were constructed and used as donors in transmission experiments. They showed that viruses move more frequently between the mycelia of the same species than betwee ...
DOI:
10.1016/j.funbio.2019.12.004

12. Transgenerational Plasticity in Human-Altered Environments

Author:
Donelan, Sarah C.; Hellmann, Jennifer K.; Bell, Alison M.; Luttbeg, Barney; Orrock, John L.; Sheriff, Michael J.; Sih, Andrew
Source:
Trends in ecology & evolution 2020 v.35 no.2 pp. 115-124
ISSN:
0169-5347
Subject:
phenotype,   etc   ; environmental factors; parents; phenotypic plasticity; progeny;     Show all 5 Subjects
Abstract:
... Our ability to predict how species will respond to human-induced rapid environmental change (HIREC) may depend upon our understanding of transgenerational plasticity (TGP), which occurs when environments experienced by previous generations influence phenotypes of subsequent generations. TGP evolved to help organisms cope with environmental stressors when parental environments are highly predictive ...
DOI:
10.1016/j.tree.2019.09.003

13. Precision medicine — networks to the rescue

Author:
Yadav, Anupama; Vidal, Marc; Luck, Katja
Source:
Current opinion in biotechnology 2020 v.63 pp. 177-189
ISSN:
0958-1669
Subject:
genotype-phenotype correlation; phenotype,   etc   ; genetic variation; human diseases; models; pathogenicity; precision medicine; prediction; proteins;     Show all 9 Subjects
Abstract:
... Genetic variants are often not predictive of the phenotypic outcome. Individuals carrying the same pathogenic variant, associated with Mendelian or complex disease, can manifest to different extents, from severe-to-mild to no disease. Improving the accuracy of predicted clinical manifestations of genetic variants has emerged as one of the biggest challenges in precision medicine, which can only be ...
DOI:
10.1016/j.copbio.2020.02.005

14. Correction to: High-throughput method for ear phenotyping and kernel weight estimation in maize using ear digital imaging

Author:
Makanza, R.; Zaman-Allah, M.; Cairns, J. E.; Eyre, J.; Burgueño, J.; Pacheco, Ángela; Diepenbrock, C.; Magorokosho, C.; Tarekegne, A.; Olsen, M.; Prasanna, B. M.
Source:
Plant methods 2019 v.15 no.1 pp. 52
ISSN:
1746-4811
Subject:
phenotype,   etc   ; corn; image analysis;     Show all 3 Subjects
Abstract:
... After the publication of our article [1], it was brought to our attention that in six places in the article we omitted to use quotation marks to show where the text has been directly used from the cited references. ...
DOI:
10.1186/s13007-019-0431-y
PubMed:
31139242
PubMed Central:
PMC6530015

15. Predator odor produces anxiety-like behavioral phenotype in planarians that is counteracted by fluoxetine

Author:
Cho, M.; Nayak, Sunil U.; Jennings, T.; Tallarida, Christopher S.; Rawls, Scott M.
Source:
Physiology & behavior 2019 v.206 pp. 181-184
ISSN:
0031-9384
Subject:
phenotype,   etc   ; frogs; mammals; odors;     Show all 4 Subjects
Abstract:
... Avoidant behavior is a characteristic feature post-traumatic stress disorder (PTSD) and is modeled in mammals with predator odor. Light avoidance is a hallmark behavioral reaction in planarians. We hypothesized that planarians exposed to frog extract would display enhanced light avoidance that is prevented by fluoxetine. Enhanced light avoidance (i.e., less time spent in light compartment of a dis ...
DOI:
10.1016/j.physbeh.2019.04.003

16. Correction to: Allometric approach to crop nutrition and implications for crop diagnosis and phenotyping. A review

Author:
Lemaire, Gilles; Sinclair, Thomas; Sadras, Victor; Bélanger, Gilles
Source:
Agronomy for sustainable development 2019 v.39 no.3 pp. 33
ISSN:
1774-0746
Subject:
phenotype,   etc   ; allometry; nutrition;     Show all 3 Subjects
Abstract:
... Due to a different interpretation of a query about figure numbering during proof stage, figures and captions in above mentioned article got mixed-up in the final version. ...
DOI:
10.1007/s13593-019-0578-y

17. Correction to: The International Mouse Phenotyping Consortium (IMPC): a functional catalogue of the mammalian genome that informs conservation

Author:
Muñoz-Fuentes, Violeta; Cacheiro, Pilar; Meehan, Terrence F.; Aguilar-Pimentel, Juan Antonio; Beaudet, Arthur L.; Brown, Steve D. M.; Dickinson, Mary E.; Flenniken, Ann M.; Flicek, Paul; Galli, Antonella; Mashhadi, Hamed Haseli; Heaney, Jason D.; Hrabě de Angelis, Martin; Kim, Jong Kyoung; Lloyd, K. C. Kent; McKerlie, Colin; Morgan, Hugh; Murray, Stephen A.; Nutter, Lauryl M. J.; Reilly, Patrick T.; Seavitt, John R.; Seong, Je Kyung; Simon, Michelle; Wardle-Jones, Hannah; Mallon, Ann-Marie; Smedley, Damian; Parkinson, Helen E.
Source:
Conservation genetics 2019 v.20 no.1 pp. 135-136
ISSN:
1566-0621
Subject:
phenotype,   etc   ; genome; mice;     Show all 3 Subjects
Abstract:
... The original publication of this article unfortunately contained the following mistakes. ...
DOI:
10.1007/s10592-019-01144-w

18. Tracing metabolic flux through time and space with isotope labeling experiments

Author:
Allen, Doug K; Young, Jamey D
Source:
Current opinion in biotechnology 2020 v.64 pp. 92-100
ISSN:
0958-1669
Subject:
phenotype,   etc   ; biochemical pathways; isotope labeling; metabolism; metabolites; surveys;     Show all 6 Subjects
Abstract:
... Metabolism is dynamic and must function in context-specific ways to adjust to changes in the surrounding cellular and ecological environment. When isotopic tracers are used, metabolite flow (i.e. metabolic flux) can be quantified through biochemical networks to assess metabolic pathway operation. The cellular activities considered across multiple tissues and organs result in the observed phenotype ...
DOI:
10.1016/j.copbio.2019.11.003

19. Glutamatergic fast-spiking parvalbumin neurons in the lateral hypothalamus: Electrophysiological properties to behavior

Author:
Siemian, Justin N.; Sarsfield, Sarah; Aponte, Yeka
Source:
Physiology & behavior 2020 v.221 pp. 112912
ISSN:
0031-9384
Subject:
phenotype,   etc   ; calcium-binding proteins; electrophysiology; hypothalamus; neurons; neurotransmitters;     Show all 6 Subjects
Abstract:
... Throughout the central nervous system, neurons expressing the calcium-binding protein parvalbumin have been typically classified as GABAergic with fast-spiking characteristics. However, new methods that allow systematic characterization of the cytoarchitectural organization, connectivity, activity patterns, neurotransmitter nature, and function of genetically-distinct cell types have revealed popu ...
DOI:
10.1016/j.physbeh.2020.112912

20. Optic vesicle morphogenesis requires primary cilia

Author:
Fiore, Luciano; Takata, Nozomu; Acosta, Sandra; Ma, Wanshu; Pandit, Tanushree; Oxendine, Michael; Oliver, Guillermo
Source:
Developmental biology 2020 v.462 no.2 pp. 119-128
ISSN:
0012-1606
Subject:
phenotype,   etc   ; cilia; ectoderm; embryo (animal); epithelium; genes; mice; morphogenesis; retina;     Show all 9 Subjects
Abstract:
... Arl13b is a gene known to regulate ciliogenesis. Functional alterations in this gene's activity have been associated with Joubert syndrome. We found that in Arl13 null mouse embryos the orientation of the optic cup is inverted, such that the lens is abnormally surrounded by an inverted optic cup whose retina pigmented epithelium is oddly facing the surface ectoderm. Loss of Arl13b leads to the dis ...
DOI:
10.1016/j.ydbio.2020.02.016