Penicillium

Help on BioloMICSNet

How to search our databases

The BioloMICSNet Software facilitates interrogation of the available databases. The Basic search allows you to search on any kind of field.

Should you need to build more complex queries, then the Advanced search ( ) will allow you to customize the query.

The following link : BioloMICS Search will redirect you to the Search page

Similarity based on on-line pair-wise alignments

The BioloMICSNet Software facilitates identifications by the performance of on-line pair-wise and probabilistic sequences (DNA and/or Proteins) identifications.

The following link : BioloMICS Sequence Pairwise Alignment will redirect you to the BioloMICS Sequence Pairwise Alignment page

Polyphasic online identification

The BioloMICSNet Software has facilitated performance of on-line polyphasic identifications since the first version produced in 1999. Depending on the databases and the criteria that are available, a wide range of characteristics can be entered, combined and analyzed to obtain an identification of an unknown. The more criteria used, the more likely the identification will be reliable. The current on-line version of the software also facilitates for the production of phenetic trees.

For a complete description on fields and algorithms used in the polyphasic identification :

The following link : BioloMICS Polyphasic Identification will redirect you to the BioloMICS Polyphasic Identification page

Deposit of user's data

BioloMICSNet users willing to deposit their data or to order items using the cart system, will have to register. We need to be able to contact the depositor/client For specific information (e.g. BioloMICSNet number, possible points of clarification, for example regarding the name, actual date of publication, etc), and we also need to ensure all entries are genuine.

To register for the first time follow the steps below:

1. Enter your email address (see Register New User), click on the 'Create New Profile' button to receive a provisional password by email (this is to make sure that the provided email is real and that you are the person that can open the given email).

2. Read your email and go to the Register menu again. Enter your email and password (obtained by email). Click on the "Login" button and access the BioloMICSNet profile form where personal information has to be entered. Change the password and personalize it. Click on the "Save profile" button. You will then be registered and ready to deposit new items (strains, species, etc) or to order items on-line via the Cart system.

Link your website

Software developers can connect their website to BioloMICSNet.

Basic address 1:
http://www.cbs.knaw.nl/Penicillium/BioloMICS.aspx?Table=V2&Descr=V3&Fields=V4&ExactMatch=V5

Basic address 2:
http://www.cbs.knaw.nl/Penicillium/BioloMICS.aspx?Table=V2&Rec=V6&Fields=V4&ExactMatch=V5

where,

V1: Database Name (see 'Database' block ' below) where to find the wanted record (see table below for more information)

V2: Table Layout Name (see 'Fields Code' block below) where to find the wanted record (see table below for more information)

V3: Name of the wanted record

V4: Fields code (see 'Fields code' below) to be displayed. To display all fields use the 'All' value (ex.: &Fields =All). To display only one field, just paste the code of the field next to the & Fields tag (ex.: &Fields =E1). To display several fields, use several & Fields tag (ex.: &Fields=E1&Fields=T4&Fields=P8). Only the fields that are not empty will be displayed. See table below for more information on fields codes.

V5: Exact match for the queries. Use T for true or F for False (ex.: &ExactMatch =T). Relevant if V3 (Name specified). 'ExactMatch=T' will search for record where Name equals the given value while 'ExactMatch=F' will search for records where Name contains the given value.

V6: Unique ID of a given record (ex.: &Rec =1)

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Information details on Database : Penicillium

Fields description for Layout : Species of subgenus Penicillium

Field Caption	Field Name	Field Code	Field type
Micro-morphology
Phialide
	Phialide length (µm)	S4	S : Continuous data range (Min,LP,HP,Max)
Metulae
	Metulae length (µm)	S5	S : Continuous data range (Min,LP,HP,Max)
Conidia
	Conidia length (µm)	S6	S : Continuous data range (Min,LP,HP,Max)
	Conidia width (µm)	S7	S : Continuous data range (Min,LP,HP,Max)
	Roughness conidia	T1	T : Discrete data, 15 combinations of 4 independant states
Stipe
	Stipe width (µm)	S8	S : Continuous data range (Min,LP,HP,Max)
	Roughness stipe	T10	T : Discrete data, 15 combinations of 4 independant states
Pattern conidiophore
	Branching pattern	C4	C : Discrete data, multiple state
	Adpressedness	T3	T : Discrete data, 15 combinations of 4 independant states
Miscellaneous
	Bibliography	B1	RLink : Link to one or more records
	Nomenclature_Mycobank	E2_Mycobank	U : URL
	Nomenclature	E2	RLink : Link to one or more records
	Security	E3	E : Text, administrative field
	Race	E4	E : Text, administrative field
	Other collection numbers	E5	E : Text, administrative field
	Identified by	E6	E : Text, administrative field
	Pevious names	E7	E : Text, administrative field
	Isolated by	E8	E : Text, administrative field
	Isolation method	E9	E : Text, administrative field
	Deposited by	E10	E : Text, administrative field
	Collected by	E11	E : Text, administrative field
	Substrate	E12	E : Text, administrative field
	Location	E13	E : Text, administrative field
	Herbarium number	E14	E : Text, administrative field
	Status	E15	E : Text, administrative field
	Mutant	E16	E : Text, administrative field
	Veg. compatibility	E17	E : Text, administrative field
	Sexual state	E18	E : Text, administrative field
	Conditions for growth	E19	E : Text, administrative field
	Conditions for sporulation	E20	E : Text, administrative field
	Restrictions	E21	E : Text, administrative field
	Enzymes	E22	E : Text, administrative field
	Metabolites	E23	E : Text, administrative field
	Decomposition	E24	E : Text, administrative field
	Pathogenicity	E25	E : Text, administrative field
	Symbiosis	E26	E : Text, administrative field
	Mycoparasitism	E27	E : Text, administrative field
	Antagonism	E28	E : Text, administrative field
	Toxicity	E29	E : Text, administrative field
	Applications	E30	E : Text, administrative field
	Testing	E31	E : Text, administrative field
	Patents	E32	E : Text, administrative field
	Remarks	E33	E : Text, administrative field
	Price in Euro	E34	E : Text, administrative field
Macro-morphology
Data CREA
	Acid production on CREA	T5	T : Discrete data, 15 combinations of 4 independant states
	Base production on CREA	T6	T : Discrete data, 15 combinations of 4 independant states
	Degree of growth on CREA	T9	T : Discrete data, 15 combinations of 4 independant states
	Colony diameter CREA (mm)	S31	S : Continuous data range (Min,LP,HP,Max)
Data YES
	Sporulation on YES	T8	T : Discrete data, 15 combinations of 4 independant states
	Reverse colour on YES	C7	C : Discrete data, multiple state
	Colony diameter YES (mm)	S28	S : Continuous data range (Min,LP,HP,Max)
Data MEA
	Fasiculation on MEA	T12	T : Discrete data, 15 combinations of 4 independant states
	Lanose on MEA	T13	T : Discrete data, 15 combinations of 4 independant states
	Colony diameter MEA (mm)	S29	S : Continuous data range (Min,LP,HP,Max)
Data CYA
	Reverse colour on CYA	C8	C : Discrete data, multiple state
	Conidium colour on CYA	C9	C : Discrete data, multiple state
	Ehrlich reaction	T14	T : Discrete data, 15 combinations of 4 independant states
	Colony diameter CYA (mm)	S27	S : Continuous data range (Min,LP,HP,Max)
Ecophysiological data
	Ratio CYAS/CYA	S24	S : Continuous data range (Min,LP,HP,Max)
	Ratio CYA15/CYA25	S25	S : Continuous data range (Min,LP,HP,Max)
	Ratio CYA30/CYA25	S26	S : Continuous data range (Min,LP,HP,Max)
Data CZ
	Colony diameter CZ (mm)	S30	S : Continuous data range (Min,LP,HP,Max)
Data DG18
	Colony diameter DG18 (mm)	S32	S : Continuous data range (Min,LP,HP,Max)
	Macroscopical Images_Link	P1_Link	FLink : Link to File
DNA sequences
	Partial beta-tubulin	N2	NLink : Link to Sequence
	LSU sequences	N3	NLink : Link to Sequence
	SSU sequences	N4	NLink : Link to Sequence
	ITS sequences	N5	NLink : Link to Sequence
	Beta-tubulin from Genbank	N6	NLink : Link to Sequence

Examples of hyperlinks for Table Species of subgenus Penicillium in Database Penicillium

Example 1: Record #1 [Penicillium aethiopicum], Display all Fields

http://www.cbs.knaw.nl/Penicillium/BioloMICS.aspx?Table=Species of subgenus Penicillium&Rec=1&Fields=All&ExactMatch=T

Example 2: Record Name is 'Penicillium aethiopicum' , Display all Fields, Exact Match Searching

http://www.cbs.knaw.nl/Penicillium/BioloMICS.aspx?Table=Species of subgenus Penicillium&Name=Penicillium aethiopicum&Fields=All&ExactMatch=T

Example 3: Record Name containing 'Penicillium' , Display all Fields, Non Exact Match Searching

http://www.cbs.knaw.nl/Penicillium/BioloMICS.aspx?Table=Species of subgenus Penicillium&Name=Penicillium&Fields=All&ExactMatch=F

Example 4: Record Name containing 'Penicillium' , Display Field 'S4' (Phialide length (µm)), Non Exact Match Searching

http://www.cbs.knaw.nl/Penicillium/BioloMICS.aspx?Table=Species of subgenus Penicillium&Name=Penicillium&Fields=S4&ExactMatch=F

Example 5: Record Name is 'Penicillium caseifulvum' , Display Field 'S4' (Phialide length (µm)) and 'N6' (Beta-tubulin from Genbank) , Exact Match Searching

http://www.cbs.knaw.nl/Penicillium/BioloMICS.aspx?Table=Species of subgenus Penicillium&Name=Penicillium caseifulvum&Fields=S4&Fields=N6&ExactMatch=T

Fields description for Layout : Strains of subgenus Penicillium

Field Caption	Field Name	Field Code	Field type
Micro-morphology
Phialide
	Phialide length (µm)	S4	S : Continuous data range (Min,LP,HP,Max)
Metulae
	Metulae length (µm)	S5	S : Continuous data range (Min,LP,HP,Max)
Conidia
	Conidia length (µm)	S6	S : Continuous data range (Min,LP,HP,Max)
	Conidia width (µm)	S7	S : Continuous data range (Min,LP,HP,Max)
	Roughness conidia	T1	T : Discrete data, 15 combinations of 4 independant states
Stipe
	Stipe width (µm)	S8	S : Continuous data range (Min,LP,HP,Max)
	Roughness stipe	T10	T : Discrete data, 15 combinations of 4 independant states
Pattern conidiophore
	Branching pattern	C4	C : Discrete data, multiple state
	Adpressedness	T3	T : Discrete data, 15 combinations of 4 independant states
Miscellaneous
	Bibliography	B1	RLink : Link to one or more records
	Nomenclature_Mycobank	E2_Mycobank	U : URL
	Nomenclature	E2	RLink : Link to one or more records
	Security	E3	E : Text, administrative field
	Race	E4	E : Text, administrative field
	Other collection numbers	E5	E : Text, administrative field
	Identified by	E6	E : Text, administrative field
	Pevious names	E7	E : Text, administrative field
	Isolated by	E8	E : Text, administrative field
	Isolation method	E9	E : Text, administrative field
	Deposited by	E10	E : Text, administrative field
	Collected by	E11	E : Text, administrative field
	Substrate	E12	E : Text, administrative field
	Location	E13	E : Text, administrative field
	Herbarium number	E14	E : Text, administrative field
	Status	E15	E : Text, administrative field
	Mutant	E16	E : Text, administrative field
	Veg. compatibility	E17	E : Text, administrative field
	Sexual state	E18	E : Text, administrative field
	Conditions for growth	E19	E : Text, administrative field
	Conditions for sporulation	E20	E : Text, administrative field
	Restrictions	E21	E : Text, administrative field
	Enzymes	E22	E : Text, administrative field
	Metabolites	E23	E : Text, administrative field
	Decomposition	E24	E : Text, administrative field
	Pathogenicity	E25	E : Text, administrative field
	Symbiosis	E26	E : Text, administrative field
	Mycoparasitism	E27	E : Text, administrative field
	Antagonism	E28	E : Text, administrative field
	Toxicity	E29	E : Text, administrative field
	Applications	E30	E : Text, administrative field
	Testing	E31	E : Text, administrative field
	Patents	E32	E : Text, administrative field
	Remarks	E33	E : Text, administrative field
	Price in Euro	E34	E : Text, administrative field
Macro-morphology
Data CREA
	Acid production on CREA	T5	T : Discrete data, 15 combinations of 4 independant states
	Base production on CREA	T6	T : Discrete data, 15 combinations of 4 independant states
	Degree of growth on CREA	T9	T : Discrete data, 15 combinations of 4 independant states
	Colony diameter CREA (mm)	S31	S : Continuous data range (Min,LP,HP,Max)
Data YES
	Sporulation on YES	T8	T : Discrete data, 15 combinations of 4 independant states
	Reverse colour on YES	C7	C : Discrete data, multiple state
	Colony diameter YES (mm)	S28	S : Continuous data range (Min,LP,HP,Max)
Data MEA
	Fasiculation on MEA	T12	T : Discrete data, 15 combinations of 4 independant states
	Lanose on MEA	T13	T : Discrete data, 15 combinations of 4 independant states
	Colony diameter MEA (mm)	S29	S : Continuous data range (Min,LP,HP,Max)
Data CYA
	Reverse colour on CYA	C8	C : Discrete data, multiple state
	Conidium colour on CYA	C9	C : Discrete data, multiple state
	Ehrlich reaction	T14	T : Discrete data, 15 combinations of 4 independant states
	Colony diameter CYA (mm)	S27	S : Continuous data range (Min,LP,HP,Max)
Ecophysiological data
	Ratio CYAS/CYA	S24	S : Continuous data range (Min,LP,HP,Max)
	Ratio CYA15/CYA25	S25	S : Continuous data range (Min,LP,HP,Max)
	Ratio CYA30/CYA25	S26	S : Continuous data range (Min,LP,HP,Max)
Data CZ
	Colony diameter CZ (mm)	S30	S : Continuous data range (Min,LP,HP,Max)
Data DG18
	Colony diameter DG18 (mm)	S32	S : Continuous data range (Min,LP,HP,Max)
	Macroscopical Images_Link	P1_Link	FLink : Link to File
DNA sequences
	Partial beta-tubulin	N2	NLink : Link to Sequence
	LSU sequences	N3	NLink : Link to Sequence
	SSU sequences	N4	NLink : Link to Sequence
	ITS sequences	N5	NLink : Link to Sequence
	Beta-tubulin from Genbank	N6	NLink : Link to Sequence

Examples of hyperlinks for Table Strains of subgenus Penicillium in Database Penicillium

Example 1: Record #1 [CBS 110336], Display all Fields

http://www.cbs.knaw.nl/Penicillium/BioloMICS.aspx?Table=Strains of subgenus Penicillium&Rec=1&Fields=All&ExactMatch=T

Example 2: Record Name is 'CBS 110336' , Display all Fields, Exact Match Searching

http://www.cbs.knaw.nl/Penicillium/BioloMICS.aspx?Table=Strains of subgenus Penicillium&Name=CBS 110336&Fields=All&ExactMatch=T

Example 3: Record Name containing 'CBS' , Display all Fields, Non Exact Match Searching

http://www.cbs.knaw.nl/Penicillium/BioloMICS.aspx?Table=Strains of subgenus Penicillium&Name=CBS&Fields=All&ExactMatch=F

Example 4: Record Name containing 'CBS' , Display Field 'S4' (Phialide length (µm)), Non Exact Match Searching

http://www.cbs.knaw.nl/Penicillium/BioloMICS.aspx?Table=Strains of subgenus Penicillium&Name=CBS&Fields=S4&ExactMatch=F

Example 5: Record Name is 'CBS 101136' , Display Field 'S4' (Phialide length (µm)) and 'N6' (Beta-tubulin from Genbank) , Exact Match Searching

http://www.cbs.knaw.nl/Penicillium/BioloMICS.aspx?Table=Strains of subgenus Penicillium&Name=CBS 101136&Fields=S4&Fields=N6&ExactMatch=T

Contact(s) for Database : Penicillium

The following link : BioloMICS Contact information will redirect you to the BioloMICS Contact information page

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