NDLI: Evolvability and robustness in a complex signalling circuit

Please wait, while we are loading the content...

A novel paradigm for potential drug-targets discovery: quantifying relationships of enzymes and cascade interactions of neighboring biological processes to identify drug-targets

Deciphering interactions used by the influenza virus NS1 protein to silence the host antiviral sensor protein RIG-I using a bacterial reverse two-hybrid system

A metabolomics strategy for detecting protein–metabolite interactions to identify natural nuclear receptor ligands

The RNA–DNA hybrid structure determined by EPR, CD and RNase H1

Zinc-induced dimerization of the amyloid-β metal-binding domain 1–16 is mediated by residues 11–14

Rapid characterization and engineering of natural product biosynthetic pathways via DNA assembler

Identifying selective inhibitors against the human cytosolic sialidase NEU2 by substrate specificity studies

Evidences for supramolecular organization of nucleopeptides: synthesis, spectroscopic and biological studies of a novel dithymine l-serine tetrapeptide

Evolvability and robustness in a complex signalling circuit

Integrative analysis of transcriptomic and proteomic data of Shewanella oneidensis: missing value imputation using temporal datasets

Self-renewal of the human gastric epithelium: new insights from expression profiling using laser microdissection

Molecular computing with plant cell phenotype serving as quality controlled output

Linking amyloid protein aggregation and yeast survival

Mathematical model of PAR1-mediated activation of human platelets

Characterization of the adaptive response and growth upon hyperosmotic shock in Saccharomyces cerevisiae

Profiling biological samples using ultra performance liquid chromatography–inductively coupled plasma–mass spectrometry (UPLC-ICP-MS) for the determination of phosphorus and sulfur-containing metabolites

Finding co-mutated genes and candidate cancer genes in cancer genomes by stratified false discovery rate control

The Haptoglobin β chain as a supportive biomarker for human lung cancers

An image-based 384-well high-throughput screening method for the discovery of biofilm inhibitors in Vibrio cholerae

Identification of an FHL1 protein complex containing ACTN1, ACTN4, and PDLIM1 using affinity purifications and MS-based protein–protein interaction analysis

GPS-YNO2: computational prediction of tyrosine nitration sites in proteins

Lyngbyoic acid, a “tagged” fatty acid from a marine cyanobacterium, disrupts quorum sensing in Pseudomonas aeruginosa

Metabolomic anatomy of an animal model revealing homeostatic imbalances in dyslipidaemia

Regioselective deacetylation based on teicoplanin-complexed Orf2* crystal structures

Spectroscopic characterization of diverse amyloid fibrils in vitro by the fluorescent dye Nile red

A metabolomics and proteomics study of the adaptation of Staphylococcus aureus to glucose starvation

Biodegradable cross-linked poly(amino alcohol esters) based on LMW PEI for gene delivery

Resilience of protein–protein interaction networks as determined by their large-scale topological features

Fluorescent labeling of membrane proteins on the surface of living cells by a self-catalytic glutathione S-transferase omega 1 tag

Proteomics analysis identifies PARK7 as an important player for renal cell resistance and survival under oxidative stress

Recombinant Escherichia coli GMP reductase: kinetic, catalytic and chemical mechanisms, and thermodynamics of enzyme–ligand binary complex formation

Potential molecular targets in chemopreventative action of celecoxib: a proteomics analysis of J774.A1 macrophage-like cell line

Synthesis and evaluation of xylopyranoside derivatives as “decoy acceptors” of human β-1,4-galactosyltransferase 7

Identification and differential induction of the expression of aquaporins by salinity in broccoli plants

Interaction of adriamycin with a promoter region of hmga1 and its inhibitory effect on HMGA1 expression in A431 human squamous carcinoma cell line

Comment on “Deletion of btn1, an orthologue of CLN3, increases glycolysis and perturbs amino acid metabolism in the fission yeast model of Batten disease”

Reply to Comment on “Deletion of btn1, an orthologue of CLN3, increases glycolysis and perturbs amino acid metabolism in the fission yeast model of Batten disease”

Back cover

Molecular BioSystems Vol - 7 Issue - 3

Molecular BioSystems Vol - 7 Issue - 2

Molecular BioSystems Vol -6

Molecular BioSystems Vol -5

Molecular BioSystems Vol -4

Molecular BioSystems Vol -3

Molecular BioSystems Vol -2

Evolvability and robustness in a complex signalling circuit

Content Provider	Royal Society of Chemistry (RSC)
Author	Wagner, Andreas Raman, Karthik
Copyright Year	2011
Abstract	Biological systems at various levels of organisation exhibit robustness, as well as phenotypic variability or evolvability, the ability to evolve novel phenotypes. We still know very little about the relationship between robustness and phenotypic variability at levels of organisation beyond individual macromolecules, and especially for signalling circuits. Here, we examine multiple alternate topologies of the Saccharomyces cerevisiae target-of-rapamycin (TOR) signalling circuit, in order to understand the circuit’s robustness and phenotypic variability. We consider each of the topological variants a genotype, a set of alternative interactions between TOR circuit components. Two genotypes are neighbours in genotype space if they can be reached from each other by a single small genetic change. Each genotype (topology) has a signalling phenotype, which we define via the concentration trajectories of key signalling molecules. We find that the circuits we study can produce almost 300 different phenotypes. The number of genotypes with a given phenotype varies very widely among these phenotypes. Some phenotypes have few associated genotypes. Others have many genotypes that form genotype networks extending far through genotype space. A minority of phenotypes accounts for the vast majority of genotypes. Importantly, we find that these phenotypes tend to have large genotype networks, greater robustness and a greater ability to produce novel phenotypes. Thus, over a broad range of phenotypic robustness, robustness facilitates phenotypic variability in our study system. Our observations show parallels to studies on macromolecules, suggesting that similar principles might govern robustness and phenotypic variability in biological systems. Our approach points a way towards mapping genotype spaces in complex circuitry, and it exposes some challenges such mapping faces.
Starting Page	1081
Ending Page	1092
Page Count	12
File Format	HTM / HTML PDF
ISSN	1742206X
Volume Number	7
Issue Number	4
Journal	Molecular BioSystems
DOI	10.1039/c0mb00165a
Language	English
Publisher	Royal Society of Chemistry
Access Restriction	Open
Subject Keyword	Phenotype Genotype Evolvability Saccharomyces cerevisiae
Content Type	Text
Resource Type	Article
Subject	Molecular Biology Biotechnology

Sl.	Authority	Responsibilities	Communication Details
1	Ministry of Education (GoI), Department of Higher Education	Sanctioning Authority	https://www.education.gov.in/ict-initiatives
2	Indian Institute of Technology Kharagpur	Host Institute of the Project: The host institute of the project is responsible for providing infrastructure support and hosting the project	https://www.iitkgp.ac.in
3	National Digital Library of India Office, Indian Institute of Technology Kharagpur	The administrative and infrastructural headquarters of the project	Dr. B. Sutradhar bsutra@ndl.gov.in
4	Project PI / Joint PI	Principal Investigator and Joint Principal Investigators of the project	Dr. B. Sutradhar bsutra@ndl.gov.in Prof. Saswat Chakrabarti will be added soon
5	Website/Portal (Helpdesk)	Queries regarding NDLI and its services	support@ndl.gov.in
6	Contents and Copyright Issues	Queries related to content curation and copyright issues	content@ndl.gov.in
7	National Digital Library of India Club (NDLI Club)	Queries related to NDLI Club formation, support, user awareness program, seminar/symposium, collaboration, social media, promotion, and outreach	clubsupport@ndl.gov.in
8	Digital Preservation Centre (DPC)	Assistance with digitizing and archiving copyright-free printed books	dpc@ndl.gov.in
9	IDR Setup or Support	Queries related to establishment and support of Institutional Digital Repository (IDR) and IDR workshops	idr@ndl.gov.in

Predicting complex phenotype–genotype interactions to enable yeast engineering: Saccharomyces cerevisiae as a model organism and a cell factory

A tractable genotype–phenotype map modelling the self-assembly of protein quaternary structure

Saccharomyces cerevisiae metabolism in ecological context.

Robustness of Saccharomyces Cerevisiae Genome to Antioxidative Stress

Robustness, Evolvability, and the Logic of Genetic Regulation

Quantitative Analysis of Evolvability using Vertex Centralities in Phenotype Network

Robustness and evolvability in natural chemical resistance: identification of novel systems properties, biochemical mechanisms and regulatory interactions

Supplementary material from "Adding levels of complexity enhances robustness and evolvability in a multilevel genotype–phenotype map"

The organization of biological sequences into constrained and unconstrained parts determines fundamental properties of genotype-phenotype maps.

Evolvability and robustness in a complex signalling circuit

Similar Documents

Predicting complex phenotype–genotype interactions to enable yeast engineering: Saccharomyces cerevisiae as a model organism and a cell factory

A tractable genotype–phenotype map modelling the self-assembly of protein quaternary structure

Saccharomyces cerevisiae metabolism in ecological context.

Robustness of Saccharomyces Cerevisiae Genome to Antioxidative Stress

Robustness, Evolvability, and the Logic of Genetic Regulation

Quantitative Analysis of Evolvability using Vertex Centralities in Phenotype Network

Robustness and evolvability in natural chemical resistance: identification of novel systems properties, biochemical mechanisms and regulatory interactions

Supplementary material from "Adding levels of complexity enhances robustness and evolvability in a multilevel genotype–phenotype map"

The organization of biological sequences into constrained and unconstrained parts determines fundamental properties of genotype-phenotype maps.

Evolvability and robustness in a complex signalling circuit