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Sunday, January 30, 2011

DAHLIA

Familyasteraceae
Life cycletender perennial
Flowersdeep pink-red (summer)
Size2'
Lightsun-part shade
Cultural notesordinary garden soil
From seed germinates quickly at room temperature
Flowers first year from seed sown indoors early.
detailed seed-starting info below
Seed ripenslate September

Grown from seeds received in trade, this was a most welcome surprise - we love the way the dark purple foliage combines with the red-to-deep pink flowers. Not sure of the true cultivar name - I haven't been able to find any references to this strain. At any rate, we'll try this one again.


Dahlia 'Jazz'

CAREX

Common nameweeping sedge
Familycyperaceae
Life cycleperennial
Size2', flower stalks to 4'
Lightpart shade
Cultural notesmoist soil
From seed provide cold treatment, then germinate at room temperature
detailed seed-starting info below

As sedges go, this one is quite coarse. It was rather uninspiring for the first few years of its life, and still is not a stunner - but now at least the foliage is dense enough to make a statement (it was very sparse in its earlier years). The flowers/seedheads might merit the designation "interesting". In all, a plant I'll keep around, but probably not in the high-rent area in the middle of our side garden, where it lives now.


weeping sedge

CROCUS SATIVUS

Common namesaffron crocus
Familyiridaceae
Life cycleperennial bulb (Z6-9)
Flowerslavender (October)
Size4"
Lightsun
Cultural noteswell-drained soil

Although we grow this fall-blooming crocus for its pretty veined lavender flowers, it is also the source of the spice saffron - the highest quality spice uses only the red stigmas, lower qualities include the yellow anthers. Both contribute to the ornamental qualities of the flower. Although the flowers don't last long in our garden, they make us stop and look when they do.


Crocus sativus

CORIANDRUM

Common namecilantro; coriander
Familyapiaceae
Life cycleannual
Flowerswhite
Size4'
Lightsun-part shade
From seed self-seeds in our garden

Most years, we get a number of cilantro plants as volunteers in our herb garden - and we gladly let them grow, even though by the time they'd be most valuable (when ripening tomatoes are clamoring for a pico de gallo partner) they long since gone to seed. I've no idea how this exuberant specimen wound up in our newly planted bogside border, but even here I couldn't get myself to chop it down (until it got ratty after the blooms faded). We do use coriander as a culinary spice, but not in such quantity that we need to harvest much - the round seeds are set in profusion.
Coriandrum sativum

COMMELINA

Common nameasiatic dayflower
Familycommelinaceae
Life cycleannual
Flowersblue (summer)
Size6-12"
Lightsun-part shade

This appeared in a place where we once grewCommelina dianthifolia (bird's bill dayflower); it took some time for me to realize that what grows there now is a different species, and I have no idea how it got there. Relative to the bird's bill, this one is missing the third, lower petal. Another similar species is C. erecta, but its stamens are all yellow, without the prominent dark centers for this species from Asia. In any case, it's pretty nice for a volunteer wildflower. It can stay for now.


Commelina communis

CLEMATIS

Familyranunculaceae
Life cycleshrub (Z3-7)
Flowersblue (summer)
Size18-36"
Lightsun-part shade
Cultural notesordinary garden soil
From seed temperature cycling may be helpful for germination
detailed seed-starting info below
Seed ripensextended period, starting mid-September

One of the shrubby clematis species. Compared to the tube clematis we also grow, this one has more of a lax habit - at least so far in our garden. It just bloomed for the first time this year (its third in our garden), and I'm very charmed. The buds are held upright, but once opened, the flowers look at their toes. They are a very clear blue, with some petal texture to make them appear two-toned. We'll have to wait a few more years to see its true habit when fully established.
Clematis integrifolia

CHRYSANTHEMUM

Synonym(s)Chrysanthemum x rubellum; dendranthema
Common namepink daisy mum
Familyasteraceae
Life cycleperennial (Z5-9)
Flowerspale pink/yellow (fall)
Size2-3'
Lightfull sun
Cultural notesordinary garden soil

Tough plant, with lots and lots of single salmon-pink, yellow-centered daisy flowers for weeks in fall, the very last of our garden perennials to come into bloom. Keeps blooming through freezes. Tolerates drought. Spreads nicely by roots, and produces some seedlings as well, although they don't always come true - good for some interesting color variations!
Chrysanthemum koreanum 'Sheffield'

COMPANULA

Common nameCarpatian harebell
Familycampanulaceae
Life cycleperennial
Flowersblue, late spring
Size6"
Lightfull sun-part shade
Cultural notesordinary garden soil, well-drained

Tidy clump of fresh green foliage, covered with nodding blue flowers in late spring. Hasn't been long-lived in the garden for us, but worth getting anew once in a while.


Campanula carpatica

ARTEMISIA

Common namewhite mugwort
Familyasteraceae
Life cycleperennial (Z3-8)
Flowerswhite (August-September)
Size6'
Lightsun-part shade

Unlike most artemisias, this one has showy flowers, on an upright plant with deep plum stems and dark green leaves. We'd tried this unsuccessfully in a few locations (if only common mugwort A. vulgaris were so easy to kill!), but our latest attempt, in a semi-shaded area behind our bog filter, appears successful – the plant has survived a few years, and grew taller this year than before.


Artemisia lactiflora 'Guizhou'

Saturday, January 29, 2011

COLCHICUM

Common nameautumn crocus
Familycolchicaceae
Life cycleperennial bulb
Flowerswhite (October)
Light

This one was part of a colchicum assortment I bought one year, and didn't bloom for a year or two. In fact, I thought it was all gone, when I noticed it in late October, after a few weeks of near-continuous rain had kept me out of the garden. Obviously, it was weathered and sad by then, but at least it's still alive, and may choose to bloom at a more opportune time next year.
Colchicum autumnale 'Alboplenum'



CALTHA

Synonym(s)Caltha polypetala
Common namemarsh marigold, kingcup
Familyranunculaceae
Life cycleperennial (Z3)
Flowersyellow
Size12-18"
Lightsun-part shade
Cultural notesmarginal aquatic (water to 6" deep), likes acid soil

In the bog plant package that came with our new pond, there are two calthas - one was labeled Caltha palustris (marsh marigold), the other Caltha polypetala (giant marsh marigold). According to GRIN, the species are synonymous - we'll see if the plants behave the same when they do their thing next year


Caltha palustris

BEGONIA

Common namehardy begonia
Familybegoniaceae
Life cycleperennial (Z6-9)
Flowerssoft pink, white (September)
Size18"
Lightpart shade
Cultural notesordinary garden soil (not too dry)
From seed germinate at room temperature (do not cover)
detailed seed-starting info below

We grew our first from seed, labeled as subspecies evansiana. So tiny and delicate as seedlings, I was surprised they survived - but they did, and by mid-summer, it was showing off its lovely foliage; by late summer, the first soft pink flower appeared. In the years following, I thought several times that the plants were lost, but in fact they are just very late to emerge: late May or early June in our garden. Somewhere along the line we picked up a few new plants, probably not of the subspecies - these are the white ones above, making for an appealing contrast in foliage and flower with the Daphne retusa behind it


Begonia grandis ssp. evansiana

ARISTOLOCHIA

Common nameDutchman's pipe
Familyaristolochiaceae
Life cyclewoody vine
Flowerscream yellow (spring)
Lightsun-part shade
Cultural notesordinary garden soil

One of the odder plants in our garden. Of course as a Dutchman, I had to grow this (although I haven't managed to grow my breeches yet), even though the "pipes" are mostly hidden behind the big leaves. It's worth a peak every once in a while, though, for the sheer curiousness of flower. For the rest of the year, it's a useful green vine, whose large mid-green leaves have a calming effect on the garden. It's getting too big for the home-made copper trellis we grow it on, and has extended itself into the nearby weeping cherry...


Aristolochia tomentosa

ARISAEMA

Common namejack in the pulpit
Familyaraceae
Life cycleperennial (Z4-9)
Flowerspurple/green (late spring)
Size2'
Lightpart-full shade
Cultural notesmoist soil
Seed ripensearly October

I've tried several jacks from seed over the years, but this common jack-in-the-pulpit is the only one to thrive so far. This year is its best yet, with good healthy foliage and a strong flower. Fighting for room in the crowded space that is our shade garden, it seems to be holding its own just fine. The leaves unfurl from alienesque burgundy-patterned spear-shaped sheaths. Odd is good.


Arisaema triphyllum

AMARANTHUS HYBRID

Common nameamaranth
Familyamaranthaceae
Life cycleannual
Lightsun
From seed germinate at room temperature (or slightly warmer)
detailed seed-starting info below

'Opopeo' has upright purple spikes; our seedlings have slightly different forms, some more uniformly colored than others. 'Hopi Red Dye' (A. cruentus x powellii) has burgundy foliage with scarlet plumes. A new favorite this past year was 'Oeschberg', which sports the most brilliant burgundy plumes, arranged almost spirally when young; it also held its foliage and flower color longer than other similarly colored varieties.
Amaranthus hybrids

AGAVE

GAVECommon namehardy century plant
Familyagavaceae
Life cycleperennial
Size15"
Lightsun
Cultural noteswell-drained soil

Most sources list this agave as hardy only in zones 9-10; Plant Delights Nursery extends it to Z7-10; and there are reports of hardiness in zone 6 (see links below). I picked up a tiny 2nd-year plant at the HPS/MAG plant sale, and set it in our rock garden to see if it survives.


Agave lophantha

ABELMOSCHUS(LADY'S FINGER)

Common nameflowering okra
Familymalvaceae
Life cycleannual
Flowersyellow/black (late summer)
Size5'
Lightsun
Cultural notesordinary garden soil
From seed Germinate at room temperature (bottom heat helpful). Occasionally self-seeds in our garden. Sometimes requires hard nicking to germinate.
detailed seed-starting info below

Striking, large lemon-yellow hibiscus-like flowers, deeply cut foliage. Upright plant habit. We grow it just about every year.


Abelmoschus manihot

BALANOPHORA

Balanophora
Ategmic ovule
Naked magasporangium
Terminal inflorescence
Complete root parasite
Scale leaves

Saturday, January 22, 2011

What are the different kinds of Cancer?


The four most common cancers are:

Cancers of Blood and Lymphatic Systems:

Skin cancers:

Cancers of Digestive Systems:

Cancers of Urinary system:

Cancers in women:

Miscellaneous cancers:

The Twenty Amino Acids of Proteins

Based on the physical and chemical properties of R groups, the 20 amino acids of proteins may be classified as follows.
1. Acidic: including aspartic acid (aspartate) and glutamatic acid (glutamate).  In a neutral solution, the R group of an acidic amino acid may lose a proton and become negatively charged.
2. Basic: including lysine, arginine and histidine.  In a neutral solution, the R group of a basic amino acid may gain a proton and become positively charged.  Interaction between positive and negative R groups may form a salt bridge, which is an important stabilizing force in proteins.
3. Aromatic: including tyrosine, tryptophan and phenylalanine.  Their R groups contain an aromatic ring.
4. Sulfur: including cysteine and methionine. Their R groups contain a sulfur atom (S).  The disulfide bond formed between two cysteine residues provides a strong force for stabilizing the globular structure.  A unique feature about methionine is that the synthesis of all peptide chains starts from methionine (Chapter 5 Section C).
5. Uncharged hydrophilic: including serine, threonine, asparagine and glutamine.  Their R groups are hydrophilic and capable of forming hydrogen bonds.
6. Inactive hydrophobic: including glycine, alanine, valine, leucine and isoleucine.  These amino acids are more likely to be buried in the protein interior.  Their R groups do not form hydrogen bonds and rarely participate in chemical reactions.
7. Special structure: including proline.  In most amino acids, the R group and the amino group are not directly connected.  Proline is the only exception among 20 amino acids found in protein.  Due to this special feature, proline is often located at the turn of a peptide chain in the three-dimensional structure of a protein.
Figure 2-A-2.  Names, symbols, chemical structures and hydrophobicity indices of the 20 amino acids found in proteins.  They are arranged in the order as discussed above.

DNA's B Form, A Form and Z Form

In a DNA molecule, the two strands are not parallel, but intertwined with each other.  Each strand looks like a helix.  The two strands form a "double helix" structure,  which was first discovered by James D. Watson and Francis Crick in 1953.  In this structure, also known as the B form, the helix makes a turn every 3.4 nm, and the distance between two neighboring base pairs is 0.34 nm.  Hence, there are about 10 pairs per turn.  The intertwined strands make two grooves of different widths, referred to as the major groove and the minor groove, which may facilitate binding with specific proteins.
Figure 3-B-3.  The normal right-handed "double helix" structure of DNA, also known as the B form.

In a solution with higher salt concentrations or with alcohol added, the DNA structure may change to an A form, which is still right-handed, but every 2.3 nm makes a turn and there are 11 base pairs per turn.
Another DNA structure is called the Z form, because its bases seem to zigzag.  Z DNA is left-handed.  One turn spans 4.6 nm, comprising 12 base pairs.  The DNA molecule with alternating G-C sequences in alcohol or high salt solution tends to have such structure.
Figure 3-B-4.  Comparison between B form and Z form.

DNA Cloning

DNA cloning is a technique to reproduce DNA fragments.  It can be achieved by two different approaches:  (1) cell based,  and (2) using polymerase chain reaction (PCR).  In the cell-based approach, a vector is required to carry the DNA fragment of interest into the host cell.  The following figure shows a typical procedure by using plasmids as the cloning vector.  
Figure 9-A-1.  The essential steps in DNA cloning using plasmids as vectors.
(a) DNA recombination.  The DNA fragment to be cloned is inserted into a vector (more information).  The recombinant vector must also contain an antibiotic-resistance gene (not shown).
(b) Transformation.  The recombinant DNA enters into the host cell and proliferates.  It is called "transformation" because the function of the host cell may be altered.  Normal E. coli cells are difficult to take up plasmid DNA from the medium.  If they are treated with CaCl2, the transformation efficiency can be significantly enhanced.   Even so, only one cell in about 10,000 cells may take up a plasmid DNA molecule.
(c) Selective amplification.  A specific antibiotic is added to kill E. coli without any protection.  The transformed E. coli is protected by the antibiotic-resistance gene whose product can inactivate the specific antibiotic.  In this figure, the numbers of vectors in each E. coli cell are not the same, because they may also reproduce independently.
(d) Isolation of desired DNA clones. 

Problems With DNA Fingerprinting

Like nearly everything else in the scientific world, nothing about DNA fingerprinting is 100% assured. The term DNA fingerprint is, in one sense, a misnomer: it implies that, like a fingerprint, the VNTR pattern for a given person is utterly and completely unique to that person. Actually, all that a VNTR pattern can do is present a probability that the person in question is indeed the person to whom the VNTR pattern (of the child, the criminal evidence, or whatever else) belongs. Given, that probability might be 1 in 20 billion, which would indicate that the person can be reasonably matched with the DNA fingerprint; then again, that probability might only be 1 in 20, leaving a large amount of doubt regarding the specific identity of the VNTR pattern's owner.
1. Generating a High Probability
The probability of a DNA fingerprint belonging to a specific person needs to be reasonably high--especially in criminal cases, where the association helps establish a suspect's guilt or innocence. Using certain rare VNTRs or combinations of VNTRs to create the VNTR pattern increases the probability that the two DNA samples do indeed match (as opposed to look alike, but not actually come from the same person) or correlate (in the case of parents and children).


2. Problems with Determining Probability
A. Population Genetics
VNTRs, because they are results of genetic inheritance, are not distributed evenly across all of human population. A given VNTR cannot, therefore, have a stable probability of occurrence; it will vary depending on an individual's genetic background. The difference in probabilities is particularly visible across racial lines. Some VNTRs that occur very frequently among Hispanics will occur very rarely among Caucasians or African-Americans. Currently, not enough is known about the VNTR frequency distributions among ethnic groups to determine accurate probabilities for individuals within those groups; the heterogeneous genetic composition of interracial individuals, who are growing in number, presents an entirely new set of questions. Further experimentation in this area, known as population genetics, has been surrounded with and hindered by controversy, because the idea of identifying people through genetic anomalies along racial lines comes alarmingly close to the eugenics and ethnic purification movements of the recent past, and, some argue, could provide a scientific basis for racial discrimination.
B. Technical Difficulties
Errors in the hybridization and probing process must also be figured into the probability, and often the idea of error is simply not acceptable. Most people will agree that an innocent person should not be sent to jail, a guilty person allowed to walk free, or a biological mother denied her legal right to custody of her children, simply because a lab technician did not conduct an experiment accurately. When the DNA sample available is minuscule, this is an important consideration, because there is not much room for error, especially if the analysis of the DNA sample involves amplification of the sample (creating a much larger sample of genetically identical DNA from what little material is available), because if the wrong DNA is amplified (i.e. a skin cell from the lab technician) the consequences can be profoundly detrimental. Until recently, the standards for determining DNA fingerprinting matches, and for laboratory security and accuracy which would minimize error, were neither stringent nor universally codified, causing a great deal of public outcry.

Practical Applications of DNA Fingerprinting

1. Paternity and Maternity
Because a person inherits his or her VNTRs from his or her parents, VNTR patterns can be used to establish paternity and maternity. The patterns are so specific that a parental VNTR pattern can be reconstructed even if only the children's VNTR patterns are known (the more children produced, the more reliable the reconstruction). Parent-child VNTR pattern analysis has been used to solve standard father-identification cases as well as more complicated cases of confirming legal nationality and, in instances of adoption, biological parenthood.

2. Criminal Identification and Forensics
DNA isolated from blood, hair, skin cells, or other genetic evidence left at the scene of a crime can be compared, through VNTR patterns, with the DNA of a criminal suspect to determine guilt or innocence. VNTR patterns are also useful in establishing the identity of a homicide victim, either from DNA found as evidence or from the body itself.

3. Personal Identification
The notion of using DNA fingerprints as a sort of genetic bar code to identify individuals has been discussed, but this is not likely to happen anytime in the foreseeable future. The technology required to isolate, keep on file, and then analyze millions of very specified VNTR patterns is both expensive and impractical. Social security numbers, picture ID, and other more mundane methods are much more likely to remain the prevalent ways to establish personal identification.

Making a Radioactive Probe

1. Obtain some DNA polymerase [pink]. Put the DNA to be made radioactive (radiolabeled) into a tube.

2. Introduce nicks, or horizontal breaks along a strand, into the DNA you want to radiolabel. At the same time, add individual nucleotides to the nicked DNA, one of which, *C [light blue], is radioactive.

3. Add the DNA polymerase [pink] to the tube with the nicked DNA and the individual nucleotides. The DNA polymerase will become immediately attracted to the nicks in the DNA and attempt to repair the DNA, starting from the 5' end and moving toward the 3' end.

4. The DNA polymerase [pink] begins repairing the nicked DNA. It destroys all the existing bonds in front of it and places the new nucleotides, gathered from the individual nucleotides mixed in the tube, behind it. Whenever a G base is read in the lower strand, a radioactive *C [light blue] base is placed in the new strand. In this fashion, the nicked strand, as it is repaired by the DNA polymerase, is made radioactive by the inclusion of radioactive *C bases.

5. The nicked DNA is then heated, splitting the two strands of DNA apart. This creates single-stranded radioactive and non-radioactive pieces. The radioactive DNA, now called a probe [light blue], is ready for use.

Southern Blotting

The Southern Blot is one way to analyze the genetic patterns which appear in a person's DNA. Performing a Southern Blot involves: 1. Isolating the DNA in question from the rest of the cellular material in the nucleus. This can be done either chemically, by using a detergent to wash the extra material from the DNA,or mechanically, by applying a large amount of pressure in order to "squeeze out" the DNA.
2. Cutting the DNA into several pieces of different sizes. This is done using one or more restriction enzymes.
3. Sorting the DNA pieces by size. The process by which the size separation, "size fractionation," is done is called gel electrophoresis. The DNA is poured into a gel, such as agarose, and an electrical charge is applied to the gel, with the positive charge at the bottom and the negative charge at the top. Because DNA has a slightly negative charge, the pieces of DNA will be attracted towards the bottom of the gel; the smaller pieces, however, will be able to move more quickly and thus further towards the bottom than the larger pieces. The different-sized pieces of DNA will therefore be separated by size, with the smaller pieces towards the bottom and the larger pieces towards the top.
4. Denaturing the DNA, so that all of the DNA is rendered single-stranded. This can be done either by heating or chemically treating the DNA in the gel.
5. Blotting the DNA. The gel with the size-fractionated DNA is applied to a sheet of nitrocellulose paper, and then baked to permanently attach the DNA to the sheet. The Southern Blot is now ready to be analyzed.
In order to analyze a Southern Blot, a radioactive genetic probe is used in a hybridization reaction with the DNA in question (see next topics for more information). If an X-ray is taken of the Southern Blot after a radioactive probe has been allowed to bond with the denatured DNA on the paper, only the areas where the radioactive probe binds [red] will show up on the film. This allows researchers to identify, in a particular person's DNA, the occurrence and frequency of the particular genetic pattern contained in the probe.

What is DNA Fingerprinting?

The chemical structure of everyone's DNA is the same. The only difference between people (or any animal) is the order of the base pairs. There are so many millions of base pairs in each person's DNA that every person has a different sequence.
Using these sequences, every person could be identified solely by the sequence of their base pairs. However, because there are so many millions of base pairs, the task would be very time-consuming. Instead, scientists are able to use a shorter method, because of repeating patterns in DNA.
These patterns do not, however, give an individual "fingerprint," but they are able to determine whether two DNA samples are from the same person, related people, or non-related people. Scientists use a small number of sequences of DNA that are known to vary among individuals a great deal, and analyze those to get a certain

Thursday, January 20, 2011

Binomial Nomenclature

Binomial Nomenclature

In biology, binomial nomenclature is the formal system of naming species. The system is called binominal nomenclature (particularly in zoological circles), binary nomenclature (particularly in botanical circles), or the binomial classification system. The essence of it is that each species name is in (modern scientific) Latin and has two parts, so that it is popularly known as the "Latin name" of the species, although this terminology is frowned upon by biologists and philologists, who prefer the phrase scientific name. Instead of using the seven-category system in naming an organism, Carl Linnaeus chose to use a two-word naming system. He adopted the binomial nomenclature scheme, using only the genus name and the specific name or epithet which together form the species name. For example, humans belong to genus Homo and their specific name is sapiens. Humans are then as a species classified by Linnaeus as Homo sapiens. Note that the first name, the genus, is capitalized, while the second is not.
Species is the lowest rank in this system for classifying organisms.


Contents
Ä History
Ä Value of binomial nomenclature
Ä Derivation of names
Ä Codes of nomenclature 
Ä Rules
Ä See also 
Ä References


History
The adoption of a system of binomial nomenclature is due to Swedish botanist and physician Carolus Linnaeus (1707 – 1778) who attempted to describe the entire known natural world and gave every species (mineral, plant, or animal) a two-part name. However, binomial nomenclature in various forms existed before Linnaeus, and was used by the Bauhins, who lived nearly two hundred years before Linnaeus.
Value of binomial nomenclature
The value of the binomial nomenclature system derives primarily from its economy, its widespread use, and the stability of names it generally favors:
Ä The same name can be used all over the world, in all languages, avoiding difficulties of translation.
Ä Although such stability as exists is far from absolute, the procedures associated with establishing binomial nomenclature tend to favor stability. For example, when species are transferred between genera (as not uncommonly happens as a result of new knowledge), if possible the species descriptor is kept the same. Similarly if what were previously thought to be distinct species are demoted from species to a lower rank, former species names may be retained as infraspecific descriptors.
Despite the rules favoring stability and uniqueness, in practice a single species may have several scientific names in circulation, depending largely on taxonomic point of view.


Derivation of names
The genus name and specific descriptor may come from any source. Often they are ordinary New Latin words, but they may also come from Ancient Greek, from a place, from a person (often a naturalist), a name from the local language, etc. In fact, taxonomists come up with specific descriptors from a variety of sources, including inside-jokes and puns.
However, names are always treated grammatically as if they were a Latin phrase.
There is a list of Latin and Greek words commonly used in systematic names.
Family names are often derived from a common genus within the family.
The genus name must be unique inside each kingdom. It is not normally a noun in its Latin grammar.
The specific descriptor is also a Latin word but it can be grammatically any of various forms including these:
Ä another noun nominative form in apposition with the genus; the words do not necessarily agree in gender. For example, the lion Panthera leo.
Ä a noun genitive form made up from a person's surname, as in the Tibetan antelope Pantholops hodgsonii, the shrub Magnolia hodgsonii, or the Olive-backed Pipit Anthus hodgsoni. Here, the person named is not necessarily (if ever) the person who names the species; for example Anthushodgsoni was named by Charles Wallace Richmond, not by Hodgson.
Ä a noun genitive form made up from a place name, as with Latimeria chalumnae ("of Chalumna").
Ä the common noun genitive form (singular or plural) as in the bacterium Escherichia coli. This is common in parasites, as in Xenos vesparum where vesparum simply means "of the wasps".
Ä an ordinary Latin or New Latin adjective, as in the house sparrow Passer domesticus where domesticus (= "domestic") simply means "associated with the house" (or "... with houses").
Specific descriptors are commonly reused (as is shown by examples of hodgsonii above).


Codes of nomenclature
From the mid nineteenth century onwards it became ever more apparent that a body of rules was necessary to govern scientific names. In the course of time these became Nomenclature Codes governing the naming of animals (ICZN), plants (incl. Fungi, cyanobacteria) (ICBN), bacteria (ICNB) and viruses (ICTV). These Codes differ.
Ä For example, the ICBN, the plant Code does not allow tautonyms, whereas the ICZN, the animal Code does.
Ä The starting points, the time from which these Codes are in effect (retroactively), vary from group to group. In botany the starting point will often be in 1753 (the year Carolus Linnaeus first published Species Plantarum), in zoology in 1758. Bacteriology started anew, with a starting point on 1980-01-01.
A BioCode has been suggested to replace several codes, although implementation is not in sight. There also is debate concerning development of a PhyloCode to name clades of phylogenetic trees, rather than taxa. Proponents of the PhyloCode use the name "Linnaean Codes" for the joint existing Codes and "Linnaean taxonomy" for the scientific classification that uses these existing Codes.


Rules
Although the fine detail will differ, there are certain aspects which are universally adopted:
Ä As the words "binomial", "binominal" and "binary" all signify, the scientific name of each species is formed by the combination of two words, which are in a modern form of Latin:
1. the genus name (also called the generic name).
2. a second word identifying the species within that genus, for which the technical term varies, as follows:
Ä a general term for the word identifying the species is the specific descriptor
Ä in zoology, the word identifying the species is called the specific name
Ä in botany, the word identifying the species is called the specific epithet
Ä Species names are usually typeset in italics; for example, Homo sapiens. Generally the binomial should be printed in a typeface (font) different from that used in the normal text; for example, "Several more Homo sapiens were discovered." When handwritten, they should be underlined; for example, Homo sapiens. Each name should be underlined individually.
Ä The genus name is always written with an initial capital letter.
Ä In current usage, the specific name is never written with an initial capital.
For example, the entire tiger species is Panthera tigris
Ä Some older works, on the other hand, would sometimes write the specific name with an initial capital.
Ä There are several terms for this two-part species name; these include binomen (plural binomina), binomialbinomial name,
binominalbinominal name, and species name.
Ä All taxa at ranks above species have a name composed of one word only, a "uninominal name".
Ä The first level subdivisions within a species, termed subspecies, are each given a name with three parts: these are the two forming the species name, plus a third part (the subspecific name) which identifies the subspecies within the species. This is called trinomial nomenclature, and is written differently in zoology and botany. For example:
Ä Two of the subspecies of Olive-backed Pipit are Anthus hodgsoni berezowskii and Anthus hodgsoni hodgsoni
Ä The Bengal Tiger is Panthera tigris tigris and the Siberian Tiger Panthera tigris altaica
Ä The tree European Black Elder is Sambucus nigra subsp. nigra and the American Black Elder is Sambucus nigra subsp. canadensis
Ä In scholarly texts, the main entry for the binomial is followed by the abbreviated (in botany) or full (in zoology) surname of the scientist who first published the classification. If the species was assigned in the description to a different genus from that to which it is assigned today, the abbreviation or name of the describer and the description date is set in parentheses.For example: Amaranthus retroflexus L. or Passer domesticus (Linnaeus, 1758) — the latter was originally described as member of the genus Fringilla, hence the parentheses.
Ä When used with a common name, the scientific name usually follows in parentheses.For example, "The house sparrow (Passer domesticus) is decreasing in Europe."
Ä The scientific name should generally be written in full. The exception to this is when several species from the same genus are being listed or discussed in the same paper or report; in that case the genus is written in full when it is first used, but may then be abbreviated to an initial (and period) for successive species names; for example, in a list of members of the genus Canis, when not first in the list Canis lupus becomes C. lupus. In rare cases, this abbreviated form has spread to more general use; for example, the bacterium Escherichia coli is often referred to as just E. coli, and Tyrannosaurus rex is perhaps even better known simply as T. rex, these two both often appearing even where they are not part of any list of species of the same genus.
Ä The abbreviation "sp." is used when the actual specific name cannot or need not be specified. The abbreviation "spp." (plural) indicates "several species". These are not italicised (or underlined).For example: "Canis sp.", meaning "one species of the genus Canis".
Ä Easily confused with the foregoing usage is the abbreviation "ssp." (zoology) or "subsp." (botany) indicating an unspecified subspecies; "sspp." or "subspp." indicates "a number of subspecies".
Ä The abbreviation "cf." is used when the identification is not confirmed.
Ä For example Corvus cf. splendens indicates "a bird similar to the House Crow but not certainly identified as this species".
Ä Mycology uses the same system as in botany.
See also
Ä List of botanists by author abbreviation 
Ä Trinomial nomenclature 
Ä Hybrid name 
References
- Sneath, P. H. A.. "A short history of the Bacteriological Code".
- Heather Silyn-Roberts (2000). Writing for Science and Engineering: Papers, Presentation. pp. 198.
- "Recommendation 60F". International Code of Botanical Nomenclature, Vienna Code. 2006. 60F.1.
- Charles F. Sturm, Timothy A. Pearce, Ángel Valdés (editors) (2006). The Mollusks: A Guide to Their Study, Collection, and Preservation. pp. 147.
- Frank A. Bisby, Plant Names in Botanical Databases, Plant Taxonomic Database Standards No. 3, Version 1.00, December 1994, Published for the International Working Group on Taxonomic Databases for Plant Sciences (TDWG) by the Hunt Institute for Botanical Documentation, Carnegie Mellon University, Pittsburgh

English common names with their scientific names

Vine-leaved mapleAcer cissifolium
VioletViola
Violet willowSalix daphnoides
Virginia sweet spiresItea virginica
Virginia willowItea virginica
Virginian witch hazelHamamelis virginiana
Voss's laburnumLaburnum watereri 'Vossii'
WalnutJuglans
Warminster broomCytisus praecox
Warted spindle treeEuonymus verrucosus
Water birchBetula occidentalis
Water elderViburnum opulus
Water oakQuercus nigra
Water tupeloNyssa aquatica
Wax myrtleMyrica
Wayfaring treeViburnum lantana
Weawer's broomSpartium junceum
Weeping ashFraxinus excelsior 'Pendula'
Weeping birchBetula pendula
Weeping hornbeamCarpinus betulus 'Pendula'
Weeping mulberryMorus alba 'Pendula'
Weeping willowSalix babylonica
WeigelaWeigela
Welsh gorseUlex gallii
Western catalpaCatalpa speciosa
Western gorseUlex gallii
White alderClethra
White ashFraxinus americana
White beechCarpinus betulus
White mulberryMorus alba
White oakQuercus pubescens
White pinePinus strobus
White spanish broomCytisus multiflorus
White syringaPhiladelphus coronarius
White walnutJuglans cinerea
White woodLiriodendron tulipifera
White-leaved japanese magnoliaMagnolia hypoleuca
WhitebeamSorbus aria
WhiteoakQuercus alba
Wig treeCotinus coggygria
Wild cherryPrunus cerasus
Wild jasminPhiladelphus coronarius
Wild jasmineJasminum fruticans
Wild pepperDaphne mezereum
Wild rosemaryLedum palustre
Wild service treeSorbus torminalis
WillowSalix
Willow oakQuercus phellos
Willow-leaved magnoliaMagnolia salifolia
Windmill palmTrachycarpus
Wing nutPterocarya
Winter barkDrimys winteri
Winter currantRibes sanguineum
Winter daphneDaphne odora
Winter sweetChimonanthus praecox
Witch hazelHamamelis
WolfberryLycium
WormwoodArtemisia
Yellow bark oakQuercus velutina
Yellow bean treeCatalpa ovata
Yellow birchBetula alleghaniensis
Yellow buckeyeAesculus flava
Yellow catalpaCatalpa ovata
Yellow chestnut oakQuercus muehlenbergii
Yellow jasmineJasminum fruticans
Yellow poplarLiriodendron tulipifera
Yellow spanish broomSpartium junceum
Yellow-flowered broomCytisus nigricans
Yellow-hornXanthoceras
YellowwoodCladastris kentukea
Yoshino cherryPrunus yedoensis
Young's weeping birchBetula pendula 'Youngii'
Yulan, lily treeMagnolia denudata
ZelkovaZelkova