Questions tagged [genetics]

Genetics is the branch of biology that deals with the transmission and variation of inherited characteristics.

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Estimating population divergence time with a single mitochondrial marker

Is it possible to estimate population divergence time with a single mitochondrial marker? Here is additional information for my specific case: Mitochondrial marker: Cytochrome Oxidase Subunit 1 (...
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How are animal patterns encoded in the dna?

After seeing the patterns on the feathers of a argusianus argus pheasant (shown below), I am curious where is the information that encodes a pattern for a particular bird, and what form is this ...
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why hens determine the sex of the chick?

So, I have an exercise where I have to correct the second part of the sentence. It goes like this: In hens, the sex of the chicken is determined by hen, because the hen is the heterogametic ...
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Measuring gene similarity in two bacteria models

I'm currently working with some computational models of bacteria. The bacterium I am considering is an Ecoli K-12 which has 139 genes. I have several models of the same bacterium with different ...
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633 views

Can telegony happen in humans like in Telostylinus angusticollis?

Is it possible for a human male to transmit features of his phenotype via non-genetic semen-borne factors to his mate's subsequent offspring sired by another male? As it happens in flies (Crean et al.,...
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Horizontal gene transfer and Botulinum toxin

Is it theoretically possible that any aerobic bacterium becomes able to produce Botulinum toxin as a result of horizontal gene transfer from Clostridium botulinum to that bacterium?
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Condition for a genetically modified group of cell to remain and to spread?

I was wondering: when a treatment modifies a group of gene (like in gene therapy), what makes a group of cell remains? I mean, when a cell divide itself to create new ones, if a cell was initially ...
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How to determine if twins are identical or fraternal if only one is alive?

I had a twin brother who died at birth. I've missed him all my life, and have been curious to know if we were identical or fraternal. Is there a test to determine whether we were identical or ...
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When to decide that two similar sequences are different genes or not?

Working on RNA-Seq data directed me to ask this question. In RNA-Seq jobs, after de novo assembly we have lots of transcripts with different rates of similarity (0 to almost 100 percent) that we ...
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Can a regulator genes be more highly expressed when it has more places to bind?

I am doing some research on small cell lung cancer and, from what I have found, many tumors show high levels of ASCL1, which is a regulator for neuroendocrine cell differentiation. However, no papers ...
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133 views

Difference between Classic Satellite DNA and Microsatellites/Minisatellites

I am very new to this community and have a basic question about repetitive DNA sequences. How is different (classic) satellite DNA from microsatellites/minisatellites? All textbooks give concrete ...
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question about fast/slow muscle twitch fibers

Here are my questions (I have several) 1) Are the fast twitch muscle fibers dominant or recessive as opposed to the slow? 2) Are people of mixed race/greatest genetic diversity in their background, ...
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54 views

Majority rule definition

In this book, they talk about the majority rule. Majority rule, which retain s the edges present in more than 50% of the trees. They used that rule also in ...
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339 views

How would circular dominance of alleles be determined on the genetic level?

The distinction between dominant and recessive alleles seems to be due to loss or gain of function in the proteins they code for. Alleles have been observed exhibiting incomplete and hierarchical ...
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Does Pre replication complex sit on both strands?

In case of prokaryotes, the ori site have a definite nucleotide sequence. Each ori site have 5 9base-pair consensus sequences and 4 non-consensus sequences. DNAa binds to both types of sequences with ...
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50 views

psbA-trnH intergeneteic spacer inversion

What kind of software tool would you recommend as best suited to detect psbA-trnH inverisons? I have 1x coverage Sanger .fasta files and >2000 sequences, with 1 sequence per species. Most tools I have ...
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60 views

What is allele-specific binding?

So far all I have found is this: https://www.biostars.org/p/132527/ My guess is that some alleles, for whatever reason, bind to things like transcription factors 'moreso' (for want of better word - ...
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Validity of comparing gene expression levels between alive and <24h postmortem cohort

There is a recent paper about assessment of a suicidal risk in psychotic patients https://www.ncbi.nlm.nih.gov/pmc/articles/PMC4759104/ One of the important points is that the authors compare gene ...
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36 views

How do genes get passed from one hive to another?

In hive species, like honeybees, how do genes propagate from one hive to another? If the queen only mates with drones from the same hive, and queens and drones are born to the hive they end up mating ...
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What is the probability of an XX female or XY male?

Homework question In genetics the chance of having a male or female is 50% for male and 50% for female. Using factorial method and Punnett Square prove or disprove the claim. My answer Using the ...
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Finding diploid neanderthal alignment data, looking for ambiguity codes

I'm using Neanderthal alignment data from here: http://www.eva.mpg.de/neandertal/draft-neandertal-genome/data.html Specifically, the .bam files. I would like to find alignments for neanderthal ...
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68 views

Has a restriction enzyme ever been tagged?

As part of an experiment that I am preparing, it would seem necessary for me to tag a restriction enzyme (HaeIII to be exact) with GFP. I began researching its domains to determine whether to tag the ...
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Breeding Southern Right Whales Genetics

I don't know much about biology. I just like watching David Attenborough videos and this made me curious. I just watched this video about breeding Southern Right Whales, and these two quotes puzzled ...
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What is the best test for SNV clustering?

I am looking for a method to cluster single nucleotide polymorphisms based on clinicopathologic data (mainly receptor immunoistochemistry). So far, I've came up with only two that handle dummy ...
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138 views

Amplified Fragment Length Polymorphism (AFLP) primers

I am trying to blast AFLP primer sequences to the genome to find the locations of the AFLP markers. However, I can't seem to find full alignments for the primers on the genome. For example, in the ...
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343 views

RAD sequencing: choosing the appropriate enzyme?

I’m studying Darwin’s finches genome and I say in some articles that the researchers used restriction enzymes to cut the DNA in their double digest RAD protocol. They are using EcoRI and MseI (GAATTC ...
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How to identify genes in Ralstonia that synthesize PHB and promote granule formation?

The compound polyhydroxybutyrate (PHB) is of considerable industrial interest as a biodegradable substitute for plastic. PHB is synthesized from glycerol by the bacterium Ralstonia eutropha. PHB ...
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305 views

HIV and open reading frames

In Wilk et al. 2001 I saw that HIV has 3 open reading frames. In the Watts et al. 2009, I noticed they mentioned HIV has 9 open reading frames. I don't understand this very well. e.g. ...
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75 views

Math backbone in biology/genetic

Are there any good books, that shows some advanced models in genetics particularly? The problem is i don't see any good math model in genetics interactions exept combinatorics. I'd like to know what ...
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Gel Electrophoresis

we add Etbr within the agarose gel but we do not add Etbr directly in native PAGE ?when we make agarose gel, we add Etbr before its solidification but we do not add Etbr when the native PAGE gel is in ...
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Genotype-Phenotype databases?

Beyond the Stanford HIV database, what other databases out there provide a dataset linking virus/bacterial genotype to quantitative phenotype? I'm looking for high quality datasets to test machine ...
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69 views

Why are multiple copies of the 35S enhancer used for overexpression in plants?

I know that the CaMV 35S promoter is widely used for transgenic plants, and I also know that it can be used as an enhancer element for overexpression. I noticed that it is always used as a ...
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77 views

How does intron retention make the alternative transcript non-coding?

I faced with a non-coding transcript that specified as one the isoform of BIN1. It sounds that this isoform generated as a result of alternative splicing with a intron retained; am I right? However, ...
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Why are published chromosome counts for polyploids often incorrect by an integer multiplication factor of the original diploid like count?

Why are published chromosome counts (done using techniques such as root smashes) for polyploidy flowering plants often incorrect by a multiplication factor of 2 or 3 from the original diploid like ...
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Efficient algorithm to calculate various population divergence statistics

Intro and description of the data I am simulating the evolution of very long DNA sequences. The model works well, is performant and will output data in the following kind of fasta format ...
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Do The Traces Genetic Diseases Remain in families?

I know that there are certain diseases that are predominant on genes. But, is there any sort of surety that if parents are suffering from a disorder then their offspring has to suffer from the same. ...
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76 views

Why do restriction-modification systems work?

Some RM systems (restriction-modification systems) are plasmid-borne and are transferred through bacterial conjugation. As you all know, there are two genes in an RM system, the gene that codes for ...
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Resource for finding Repressive/Inhibitory factors for a given gene?

I have a list of genes for each of which I'd like to find: A list of transcription factors that up-regulate the gene A list of inhibitory factors that down-regulate it. I used this tool on Qiagen's ...
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281 views

How TCGA CNV values are calculated?

When I download CNV SNP array data for ovarian cancer from TCGA data portal, I see some very small numbers like -5, -6 in the "Segment_Mean" column of the segmentation data files. I am very new to ...
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63 views

Where can I upload non-human Genotype data?

I have genotype data from few chicken population and I want to (need to) upload them somewhere online with free access. I have searched the web but I haven't found any place for non-human genotype ...
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Can two Hfr strains of E. coli conjugate?

Genetics textbooks (and some internet searching) yield abundant examples of Hfr strains conjugating with F- cells, but these sources are surprisingly silent regarding the results of an Hfr ...
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Genetically improved *Leucaena leucocephala* seeds

I am looking for fast growing Leucaena leucocephala seeds. Now, I am cultivating Leucaena leucocephala which can grow 6 meters in a year. But I am looking for a genetically improved seed which can ...
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examples of chromosomal aberrations with lack of sexual chromosomes?

Are there any examples in animals where individuals survive having no copies of their sexual chromosomes?
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122 views

What is TILLING?

How does TILLING (Targeting Induced Local Lesions in Genomes) work? What is needed to perform a TILLING experiment, and what kind of information can we get out of it?
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Is it reasonable to assume that RNA polymerase would bind preferentially to the promoter of the long allele of the SERT gene?

I'm trying to come up with an idea for a school project (a hypothetical research study). I'm looking at depression and the serotonin transporter gene, which is highly expressed in the human ...
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529 views

Best way to automatically link Gene Entrez ID with Gene Symbol in TCGA

I am trying to figure out how to link Gene Entrez ID with Gene Symbol, for TCGA dataset. So far, I have found this ftp directory with Gene info updated daily. But, for Entrez ID 728661, I have found ...
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59 views

Evolution: Can the genotype frequencies change, but the allele frequencies remain constant?

If a population isn't evolving because it's in Hardy-Weinberg (HW) equilibrium, then I know that both genotype and allele frequencies must stay constant. My question is, can evolution still not occur ...
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Tree-pest coevolution

Many trees first reproduce decades after germination. Many pests of trees reproduce in under a year. It would seem that the pests have an advantage in the evolutionary arms-race, as they can evolve ...
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How is knowledge about farming transfered between generations in farming ants

There are some varieties of ants capable of "agriculture", e.g. dairing ants farming aphids and leaf-cutting ants farming fungus. How is the knowledge about the techniques involved passed ...
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Help Finding Specific BlaZ Gene Type Sequences on Genbank

I am doing an undergraduate research project that involves blaZ gene typing for different strain types of Staphylococcus aureus bacteria; for reference, here are some of papers on this topic that ...

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