The entirety of an organism's hereditary information.

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1answer
27 views

Can sexual selection operate in temperature dependent sex determining organisms?

Or more broadly, are distinct forms of genetic inheritance (ie. sex chromosomes) needed for sexual selection? My thinking was that since there are no sex determining loci, there could not be linkage ...
4
votes
4answers
243 views

Is our genome decaying (see “Genetic Entropy”), and, if so, is this evidence for our genome being “young”?

In the book Genetic Entropy & the Mystery of the Genome the author says that the genome cannot be old because the genome is "decaying". Decay is a very subjective term, but in this case he means ...
2
votes
1answer
56 views

What is the strand specificity of a reference genome?

It's a simple question but I've come across many people who have this question, is the reference genome Positive of Negative strand? Indeed, I've had heated arguments over the same issue. So here's ...
2
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0answers
40 views

What happens when a genome is shorter than the other? [closed]

Say there were 2 creatures of the same species. Creature 1 has a longer genome than creature 2, it may be just a few base pairs, but what would happen when the genes were crossed to create creature 3 ...
3
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3answers
58 views

How to estimate a genome's size?

The genome size of human is 3.000.000.000 bp and for Arabidopsis it is 255.000.000 bp. I know these numbers because their genomes have been published. Which methods are used by scientists to estimate ...
11
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1answer
84 views

What limits chromosomal length?

What are the upper and lower limits for chromosome length? Are these limits different in different species or kingdoms? If there is any limit, which cellular or molecular factors are reasons?
1
vote
1answer
62 views

How Scientists sequence, assemble and annotate plant genomes? [closed]

I previously read this question and this paper and learned good things about this topic. my current question is that scientists use which tools, algorithms, soft wares... to sequence, assemble and ...
6
votes
1answer
99 views

Why is it harder to sequence plant genomes than animal genomes?

Plants seem to be less complex organisms than animals, but despite that there are less plant genomes sequenced. Is that because plant genomes are more complex, for example in terms of regulatory ...
14
votes
3answers
225 views

Why reference genome is a reference?

I have heard that a reference genome such as humans is generated by randomly choosing samples from a group of donors. But why do we call the DNA sequence generated as a reference? Why should we ...
9
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1answer
136 views

Why does polyploidy give an evolutionary advantage?

I would like to know what advantages polyploidy holds. I have come across a few examples during my research of polyploidy, for example human adults' hearts contain 27% diploid, 71% tetraploid and 2% ...
2
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0answers
53 views

Is the “concept of time” coded into the genome? [closed]

What I'm interested about is whether environmental changes' effects are coded into the genome, like metamorphosis, deciduous plants. Can it be explained by morphogens, or it's something completely ...
6
votes
1answer
94 views

Why do some bacteria have most genes on the leading strand of the genome?

Genes in the (+) strand are black and genes in the (-)strand are red. The gene distribution in E. coli genome is somewhat expected: transcribed regions would tend to alternate with non transcribed ...
3
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0answers
58 views

How to explain Genome, Genes, RNA and protein in one figure to non-biologist?

I have a presentation to do where non-biologist are attending. In order to introduce a little bit my work I have to do a quick summary on genomes. So what is a genome, a gene, an mRNA and a protein. ...
3
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0answers
55 views

Degree of dosage compensation in Drosophila melanogaster

In this paper the authors state that the dosage compensation seen in Drosophila is approximately twofold, but they do not provide any source or numbers (as far as I can see) for this. What is the mean ...
3
votes
1answer
88 views

What is the genome size of Saffron (Crocus sativus)?

I searched in the web but finally can't find an answer for my question. I don't know, may be there is no such data in the internet or maybe I cant find it. please if you can help me, or show me some ...
2
votes
1answer
88 views

Whole genome sequence analysis software

Please help to choose Bioconductor R packages and other software for the whole genome sequence data analysis and, in particlular, the goals of false discovery mutation rate, mutations exclusion, ...
1
vote
1answer
87 views

Is there a rule for the annotation of the basepair or gene locus origin in bacterial genomes?

Since all bacteria have one circular chromosome, there is no designated origin to start the systematic gene locus numbering. Therefore, what is the rule to start the numbering at a particular point ...
7
votes
1answer
87 views

Number of transcription factor genes in the human genome

What is the number of the transcription factor genes present in the human genome? Does this value differ compared to Mus musculus, Drosophila melanogaster, Arabidopsis thaliana, C. elegans and S. ...
1
vote
1answer
16 views

how to re-sequence a few Mb of genomic sequences?

If I want to re-sequence a known part of the chromosome (we know the reference genome sequence) of ~1Mb to find the possible mutations (SNP or INDEL) that caused a certain phenotype. What is the best ...
0
votes
1answer
66 views

Simplest Biological Organism? [duplicate]

What is the simplest biological organism from which a DNA sample has been or could be obtained? Could the resulting DNA be processed and examined in such a way that the resulting information would ...
6
votes
1answer
645 views

Importance of knowing GC Content of an organism

I was looking at the GC content percentages of few organisms. I also know calculating the GC content percentage. But, what I want to know is, what information would we get., let us suppose if human ...
3
votes
3answers
66 views

sex limited genome transmission

In general, for dioecious species, a large portion of the genome passed from parents to offspring of both sexes - in mammals the X-chromosomes and autosomes are passed from a mother to both daughters ...
3
votes
0answers
159 views

Accuracy of genome size estimation by flow cytometry

I'm working on a genome project and using an in silico k-mer analysis to estimate the size of our genome based on the available Illumina reads. The k-mer based estimate is consistent across a wide ...
3
votes
1answer
126 views

Do there exist publicly available Genome sequences of a family?

I would like to explore the genome sequence of a publicly available genome sequences of a family (like mother, father, son, daughter...). If such human genome sequences are not publicly available at ...
0
votes
1answer
51 views

Genome Project Focusing on gene ADRB2?

I am not sure which project database to use UCSC or Ensembl for my asthma study about ADRB2 gene (Arg/Arg-16 genotype). I am using the original Human Genome Project database at the moment. However, I ...
3
votes
3answers
92 views

Publicly available genotype data?

I am a statistician and I'd like to test my new method on biological data. For this I am looking for genotype data for a number of individuals. That is, I am looking for something like this: ...
2
votes
1answer
782 views

Why do cells vary in shape and function when they have the same genome and the same organelles?

Why do cells vary in shape and function when they have the same genome and the same organelles. For example: why do all cells have nuclei but red blood cell's don't; why can't the cells of a eye ...
3
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0answers
90 views

Could miniaturization be used to protect endangered large species?

In some animals (like dogs) size seems like it's controlled mostly by just a few genes (IGF1, and the genes that repress it). I'm curious: (1) Does other miniaturization takes a similar route (for ...
2
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0answers
97 views

Predicting host-pathogen gene interaction networks

Background What we have are: ~20 genome sequences for a host species that come with gene annotations Several sequenced genomes for parasite/pathogens of these hosts Question What are the ...
0
votes
3answers
92 views

What is the datatype of dna sample?

What is the type of data you get when analyzing dna of a person? If you want to store them in a database, what type of field you will need (text,number,hex)? And what should be it's length?
4
votes
3answers
205 views

Why do we need deep sequencing?

Why do we need deep sequencing? Why cannot the sequencing technologies read all the nucleotides correctly at the first read? Sorry since this question is too trivial, I don't have a biological ...
4
votes
4answers
299 views

Biodiversity is restricted by genome combinatorics?

Me and some friends are interested in opinions for the following: Conjecture The maximum number of species must be limited by the maximum combinatorial/permutational space that can be occupied ...
1
vote
0answers
13 views

issues with MultiPipMaker

I would like to use MultiPipMaker for testing a genome alignment between two sequences, each sequence is in .fasta format, but the problem is that when I submit the couples of file that I need, the ...
6
votes
1answer
202 views

Whole genome amino acid composition tool?

I'm interested in a statistical tool to get bacterial codon usage at genomic level. Ideally, the tool should be flexible to analyse hundreds of bacterial genomes. I've looked in MeSH terms database ...
5
votes
1answer
279 views

Variations in Genome Sizes

Why is there wide variation in genome size amongst groups of protists, insects, amphibians and plants, but less variation within groups of mammals and reptiles?
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2answers
437 views

Amount of Heterozygosity

How many loci in the human genome are heterozygous? How about other species? EDIT: I was wondering, considering for example the whole world population, how many of the human genes actually have two ...
3
votes
3answers
609 views

What species have had their genomes sequenced/are being sequenced?

The human genome project released it's first complete genome nearly ten years ago. Since then many species have also been sequenced. I am trying to find a list of completed (and possibly ...
1
vote
1answer
126 views

Bacterial division and mutation rate

When a bacteria A divides it produces two cells A', A''. Each of them receives a copy of the chromosome/plasmids. Now, DNA replication occurs way before division in a semiconservative manner. That is, ...
4
votes
1answer
1k views

What does conditional analysis of a SNP in a GWA study entail?

I am familiar with the use of tag-SNPs in genome-wide association studies to identify gene loci involved in complex traits, but I keep seeing the term "conditional analysis" used without any ...
1
vote
2answers
229 views

Effect of zero selection (pressure) on the population health

Evolution naturally produces better features: stronger muscles, teeth and minds. Killing the weakest, evolution wipes defective genes out of populations. The mutations are necessary for advance. ...
7
votes
4answers
641 views

Chromosomes are of different size but why do all chromosomes have similar GC percentage?

When I browsed NCBI I saw a pattern: even if the chromosome sizes, number of genes, and number of proteins are different, GC% in chromosomes tend to be similar. The examples are linked below. Yeast, ...
1
vote
1answer
605 views

What is the advantage of circular genomes for bacteria and linear genomes for other organisms?

Bacterial are a great group of organisms. They have circular genomes and never went toward linear genomes while other organisms show the opposite strategy and don't have circular genomes (disregarding ...
1
vote
1answer
292 views

Would two species of yeast with similar genome sizes have the same number of genes or chromosomes?

Similar organisms generally have similar genome sizes. Given this, would two species of yeast have the same number of genes and chromosomes? Edit: Fixed with thanks to @daniel-standage
3
votes
1answer
61 views

Is There An Initiative To Sequence The Genomes Of Critically Endangered Species?

I realize that there are many isolated efforts to sequence the genome of a particular endangered species such as the orangutan or the snow leopard. However is there a concerted effort to sequence the ...
3
votes
2answers
458 views

Why is the frog genome so much larger than a fish's?

As we have heard in the summaries of the human ENCODE project, 80 per cent of junk DNA appears to have an essential function. Many fish have a genome with only one tenth the size of a usual vertebrate ...
4
votes
1answer
78 views

Drosophila reference genome

Does anyone know the details about which line they are using to sequence as the Drosophila melanogaster reference genome?
6
votes
1answer
94 views

DNA modifications other than 5-mC/5-hmC/5-fC/5-caC in vertebrate genomes?

Other than 5-Methylcytosine and the more recently discovered 5-Hydroxymethyl, 5-formil and 5-carboxylcytosine DNA modifications found in DNA sequences, what are other DNA modifications present in ...
6
votes
1answer
1k views

Examples of intracellular parasites of medical or economic importance?

What are examples of intracellular parasites of medical or economic importance? I have read that Xanthomonas oryzae is an intracellular parasite in rice that produces proteins able to cause changes in ...
1
vote
1answer
90 views

TFBS predictions for yeast and pombe?

Are there any resources out there for TFBS (transcription factor binding site) predictions for the yeast (S. cerevisiae) and S. pombe genomes? Even if these are only de novo predictions, I would like ...
6
votes
1answer
50 views

harvesting fertilized eggs from Tetraodontidae species?

I would like to know how easy/difficult it is to harvest fertilized eggs from Tetraodontidae species such as Tetraodon nigroviridis or Takifugu rubripes compared to zebrafish? Ultimately, I would like ...