The entirety of an organism's hereditary information.

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1answer
58 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
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3answers
194 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
122 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
52 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
74 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
52 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
46 views
+50

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
58 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
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1answer
78 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
81 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
75 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
62 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
476 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
63 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
132 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
125 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
84 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
596 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
votes
0answers
77 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
88 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
85 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
188 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
291 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
198 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
260 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
380 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
559 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
118 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
205 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. ...
6
votes
4answers
604 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
567 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
274 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
2
votes
1answer
60 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
419 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
77 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
92 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
992 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
81 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
49 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 ...
11
votes
2answers
83 views

determining genome-wide exogenous binding of pathogens to host genome?

I've read this paper where they specifically modify a region in the rice genome to ablate the binding site of a pathogen, Xanthomonas oryzae, and disrupt the hijacking of a gene network in the rice ...
21
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2answers
2k views

Which organism has the smallest genome length?

Which animal/plant/anything has smallest length genome?
9
votes
1answer
216 views

Chicken Genome what are the LGE 'chromosomes'?

The chicken genome identifies two "LGE" sequences in the chicken genome. Are these distinct chromosomes or some highly variable sequence from the genome that is put in a separate sequence? I'm ...