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Title: Renamed_Data_Table.csv
Short Name: Renamed data Bacteriologial summary for captive loggerheads
Abstract:

The database contains a summary of bacteria which have been isolated in sea turtles dead and alive at the NOAA Galveston Laboratory and is based on reports received from the Texas Veterinary Diagnosic Laboratory in College Station, Texas.

Purpose:

Health assessment

Notes:

The column names were renamed from the original data and some spurious things were removed from the file

Keywords

Theme Keywords

Thesaurus Keyword
UNCONTROLLED
None bacteria
None bacteriology
None Caretta caretta
None Kemp's ridley
None Lepidochelys kempii
None loggerhead
None sea turtles

Physical Location

Organization: Southeast Fisheries Science Center
City: Miami
State/Province: FL
Country: USA
Location Description:

Location Of The Main Office Of The South East Fisheries Science Center

Entity Information

Entity Type: Spreadsheet
Description:

The database contains a summary of bacteria which have been isolated in sea turtles dead and alive at the NOAA Galveston Laboratory and is based on reports received from the Texas Veterinary Diagnosic Laboratory in College Station, Texas.

Data Attributes

Attribute Summary

Rubric Score Primary Key? Name Type Description
100
Turtle_ID CHARACTER NOAA sea turtle identification code made up from the abbreviated genus species for loggerhead [Cc] followed by the year-class, then the consecutive turtle number in that year class to receive medical treatment
100
Accession_Number CHARACTER A sample number issued by the laboratory analyzing the sample
100
Date_ of_ Death_or_Sample Date Date sample was taken
100
Sample_Location CHARACTER Location on sea turtle that was swabbed and produced the sample to be analyzed
100
Acinetobacter_sp. NUMERIC a genus of Gram-negative bacteria belonging to the wider class of Gammaproteobacteria
100
Aeromonas_sp. NUMERIC is a genus of Gram-negative, facultative anaerobic, rod-shaped bacteria that morphologically resembles members of the family Enterobacteriaceae
100
Aeromonas_hydrophila NUMERIC a heterotrophic, Gram-negative, rod-shaped bacterium mainly found in areas with a warm climate
100
Aeromonas_sobria NUMERIC a genus of Gram-negative, facultative anaerobic, rod-shaped bacteria that morphologically resembles members of the family Enterobacteriaceae
100
Alcaligenes_faecalis NUMERIC a species of Gram-negative, rod-shaped bacteria commonly found in the environment.
100
Alcaligenes_xylosoxidans NUMERIC Achromobacter xylosoxidans (formerly Alcaligenes xylosoxidans) is a Gram-negative, aerobic, oxidase- and catalase-positive, motile bacterium with peritrichous flagella, from the genus Achromobacter. It is generally found in wet environments
100
Bacillus_sp. NUMERIC a genus of gram-positive, rod-shaped bacteria and a member of the phylum Firmicutes. Bacillus species can be obligate aerobes (oxygen reliant), or facultative anaerobes (having the ability to be aerobic or anaerobic)
100
Bacillus_cereus NUMERIC a Gram-positive, rod-shaped, aerobic, motile, beta hemolytic bacterium commonly found in soil and food
100
Burkholderia_cepacia NUMERIC is an opportunistic human pathogen that most often causes pneumonia in immunocompromised individuals with underlying lung disease
100
Chromobacterium_violaceum NUMERIC a Gram-negative, facultative anaerobic, non-sporing coccobacillus. It is motile with the help of a single flagellum which is located at the pole of the coccobacillus. It is part of the normal flora of water and soil of tropical and sub-tropical regions of the world
100
Citrobacter_sp. NUMERIC a genus of Gram-negative coliform bacteria in the Enterobacteriaceae family
100
Citrobacter_freundii NUMERIC a species of facultative, anaerobic Gram-negative bacilli of the Enterobacteriaceae family.The bacteria are long bacterial rods C. freundii is a soil organism, but can also be found in water, sewage, food and in the intestinal tracts of animals and humans.
100
Clostridium_sp. NUMERIC a genus of Gram-positive bacteria, which includes several significant human pathogens, most notably the causative agent of botulism. Clostridium species inhabit soils and the intestinal tract of animals, including humans
100
Corynebacterium_sp. NUMERIC a genus of bacteria that are gram-positive and aerobic. They are bacilli (rod-shaped), and in some phases of life they are, more particularly, club-shaped
100
Enterics NUMERIC bacteria are bacteria of the intestines, and may refer to: Gut flora, which are always present and usually harmless. Pathogenic bacteria of bacterial gastroenteritis. The taxonomic family Enterobacteriaceae
100
Enterobacter_sp. NUMERIC a genus of common Gram-negative, facultatively anaerobic, rod-shaped, non-spore-forming bacteria of the family Enterobacteriaceae
100
Enterococcus_sp. NUMERIC a large genus of lactic acid bacteria of the phylum Firmicutes. Enterococci are Gram-positive cocci that often occur in pairs (diplococci) or short chains, and are difficult to distinguish from streptococci on physical characteristics alone
100
Escherichia_coli NUMERIC is a gram-negative, facultatively anaerobic, rod-shaped bacterium of the genus Escherichia that is commonly found in the lower intestine of warm-blooded organisms (endotherms)
100
Fungi NUMERIC Fungi can be single celled or very complex multicellular organisms. They are found in just about any habitat but most live on the land, mainly in soil or on plant material rather than in sea or fresh water
100
Gram_Negative_Non_fermenter NUMERIC a taxonomic heterogene group of bacteria of the division Proteobacteria, which can not catabolize glucose and therefore are not able to ferment. The coccoid or bacillary bacteria can be found in soil or wet areas.
100
Gram_Negative_Rod NUMERIC a group of bacteria that do not retain the crystal violet stain used in the Gram staining method of bacterial differentiation
100
Gram_Positive_Rod NUMERIC are a bacteria that give a positive result in the Gram stain test
100
Gram_Negative_pleomorphic_Rod NUMERIC a group of bacteria that can cause respiratory problems
100
Klebsiella_pneumoniae NUMERIC a Gram-negative, nonmotile, encapsulated, lactose-fermenting, facultative anaerobic, rod-shaped bacterium
100
Klebsiella_oxytoca NUMERIC a Gram-negative, rod-shaped bacterium that is closely related to K. pneumoniae
100
Listonella_anguillarum NUMERIC a Gram-negative marine bacterium in the family Vibrionaceae. The correct name nowadays is Vibrio anguillarum
100
Mixed_anaerobes NUMERIC are bacteria do not grow on solid media in room air. Anaerobic bacteria are a common cause of infections, some of which can be serious and life-threatening
100
Mixed_Bacterial_Growth NUMERIC Bacteria are present but cannot be identified to species
100
Moraxella_sp. NUMERIC a genus of Gram-negative bacteria in the Moraxellaceae family and often associated with respiratory disease.
100
Moraxella_osloensis NUMERIC a species of Gram-negative oxidase positive, aerobic bacteria within the family Moraxellaceae.
100
Morganella_sp. NUMERIC a species of gram-negative bacteria.
100
Morganella_morganii NUMERIC a species of gram-negative bacteria. It has a commensal relationship within the intestinal tracts of humans, mammals, and reptiles as normal flora
100
Mycobacterium_sp._(Rapidly-Growing) NUMERIC The genus includes pathogens known to cause serious diseases in mammals, including tuberculosis. Mycobacteria have been observed to grow in a mold-like fashion on the surface of cultures.
100
Negative_Culture_Anaerobes NUMERIC No anaerobic bacteria were present
100
Negative_Culture_Salmonella NUMERIC Salmonella bacteria was not present
100
Nocardia_sp. NUMERIC a genus of weakly staining Gram-positive, catalase-positive, rod-shaped bacteria. Nocardia species are found worldwide in soil rich in organic matter.
100
Ochrobactrum_sp. NUMERIC a bacterial genus that belongs to Brucellaceae in the Rhizobiales
100
Pantoea_sp. NUMERIC a genus of Gram-negative bacteria of the family Enterobacteriaceae, recently separated from the Enterobacter genus
100
Pasteurella_sp. NUMERIC a genus of Gram-negative, facultatively anaerobic bacteria. Many Pasteurella species are zoonotic pathogens, and humans can acquire an infection from domestic animal bites
100
Penicillium_sp. NUMERIC a genus of ascomycetous fungi of major importance in the natural environment as well as food and drug production
100
Photobacterium_damselae NUMERIC a gram-negative rod-shaped bacterium that causes disease in fish.
100
Providencia_sp. NUMERIC a Gram negative, motile bacterium of the family Enterobacteriaceae and can cause urinary tract infections
100
Proteus_sp. NUMERIC Proteus bacilli are widely distributed in nature as saprophytes, being found in decomposing animal matter, sewage, manure soil, and human and animal feces. They are opportunistic pathogens, commonly responsible for urinary and septic infections.
100
Proteus_mirabilis NUMERIC a Gram-negative, facultatively anaerobic, rod-shaped bacterium. It shows swarming motility and urease activity. It is widely distributed in soil and water.
100
Proteus_vulgaris NUMERIC a rod-shaped, nitrate-reducing, indole+ and catalase-positive, hydrogen sulfide-producing, Gram-negative bacterium that inhabits the intestinal tracts of humans and animals. It can be found in soil, water, and fecal matter.
100
Pseudomonas_sp. NUMERIC a genus of Gram-negative, aerobic Gammaproteobacteria, belonging to the family Pseudomonadaceae
100
Pseudomonas_aeruginosa NUMERIC a common Gram-negative, rod-shaped bacterium that can cause disease in plants and animals, including humans
100
Pseudomonas_pseudoalcaligenes NUMERIC an aerobic, Gram-negative soil bacterium.
100
Pseudomonas_putida NUMERIC a Gram-negative, rod-shaped, saprotrophic soil bacterium
100
Rhodococcus_equi NUMERIC a Gram-positive coccobacillus bacterium. The organism is commonly found in dry and dusty soil
100
Salmonella_sp. NUMERIC a genus of rod-shaped (bacillus) gram-negative bacterium of the Enterobacteriaceae family. The two species of Salmonella are Salmonella enterica and Salmonella bongori. S. enterica subspecies are found worldwide in all warm-blooded animals, and in the environment. S. bongori is restricted to cold-blooded animals particularly reptiles. Strains of Salmonella cause illnesses such as typhoid fever, paratyphoid fever, and food poisoning
100
Shewanella_sp. NUMERIC family of marine bacteria, some species within it were formerly classed as Alteromonas. Shewanella bacteria are a normal component of the surface flora of fish and are implicated in fish spoilage.
100
Shewanella_putrefaciens NUMERIC a Gram-negative pleomorphic bacterium. It has been isolated from marine environments It is also one of the organisms associated with the odor of rotting fish, as it is a marine organism which produces trimethylamine
100
Sphingomonas_paucimobilis NUMERIC an aerobic Gram-negative soil bacillus that has a single polar flagellum with slow motility.
100
Staphylococcus_sp. NUMERIC a genus includes at least 40 species. Most are harmless and reside normally on the skin and mucous membranes of humans and other organisms. Found worldwide, they are a small component of soil microbial flora.
100
Streptococcus_sp. NUMERIC a genus of coccus (spherical) Gram-positive bacteria belonging to the phylum Firmicutes
100
Tsukamurella_sp. NUMERIC A genus of facultatively pathogenic actinomycetes that infect immunocompromised hosts, sites with foreign body or chronic infections
100
Vibrio_sp. NUMERIC a genus of Gram-negative bacteria, possessing a curved-rod shape. Several species of which can cause foodborne infection, usually associated with eating undercooked seafood. Typically found in seawater.
100
Vibrio_alginolyticus NUMERIC a Gram-negative marine bacterium. It is medically important since it causes wound infection
100
Vibrio_fluvialis NUMERIC V. fluvialis can be found in salt waters globally and also has the potential to infect both humans and a variety of crustaceans.
100
Vibrio_harveyi NUMERIC V. harveyi can be found free-swimming in tropical marine waters, commensally in the gut microflora of marine animals, and as both a primary and opportunistic pathogen of marine animals
100
Vibrio_parahaemolyticus NUMERIC a curved, rod-shaped, Gram-negative bacterium found in brackish saltwater.
100
Vibrio_vulnificus NUMERIC a species of Gram-negative, motile, curved, rod-shaped (bacillus), pathogenic bacteria of the genus Vibrio. Present in marine environments such as estuaries, brackish ponds, or coastal areas
100
Negative_Culture_Vibrio_sp. NUMERIC No Vibrio sp. were present
100
Isolated Character Indicates what specific bacteria was isolated
100
Sensitivity_Test_Y_or_N CHARACTER Sensitivity tests expose the bacteria to antibacterial agents to determine which would be most effective at killing the bacteria. (Y)es or (N)o response
100
Cause_of_Death_or_Ilness_Identified CHARACTER If the cause of death was positively determined by necropsy, histology, or bacteriology the results are diagnosis is listed here
100
Cause_of_Death_or_Illness_Bacteria_Related _Y_or_N CHARACTER If the diagnosis indicated that bacterial infection was the primary cause of death, it is noted here

Attribute Details

Turtle_ID

CC ID: 703639
Seq. Order: 1
Data Storage Type: CHARACTER
Max Length: 10
Required: No
Primary Key: No
Status: Active
Description:

NOAA sea turtle identification code made up from the abbreviated genus species for loggerhead [Cc] followed by the year-class, then the consecutive turtle number in that year class to receive medical treatment

Accession_Number

CC ID: 703574
Seq. Order: 2
Data Storage Type: CHARACTER
Max Length: 10
Required: No
Primary Key: No
Status: Active
Description:

A sample number issued by the laboratory analyzing the sample

Date_ of_ Death_or_Sample

CC ID: 703591
Seq. Order: 3
Data Storage Type: Date
Max Length: 10
Required: No
Primary Key: No
Status: Active
Description:

Date sample was taken

Format Mask: MM/DD/YYYY

Sample_Location

CC ID: 703631
Seq. Order: 4
Data Storage Type: CHARACTER
Max Length: 20
Required: No
Primary Key: No
Status: Active
Description:

Location on sea turtle that was swabbed and produced the sample to be analyzed

Acinetobacter_sp.

CC ID: 703575
Seq. Order: 5
Data Storage Type: NUMERIC
Max Length: 1
Required: No
Primary Key: No
Status: Active
Description:

a genus of Gram-negative bacteria belonging to the wider class of Gammaproteobacteria

Aeromonas_sp.

CC ID: 703578
Seq. Order: 6
Data Storage Type: NUMERIC
Max Length: 1
Required: No
Primary Key: No
Status: Active
Description:

is a genus of Gram-negative, facultative anaerobic, rod-shaped bacteria that morphologically resembles members of the family Enterobacteriaceae

Aeromonas_hydrophila

CC ID: 703576
Seq. Order: 7
Data Storage Type: NUMERIC
Max Length: 1
Required: No
Primary Key: No
Status: Active
Description:

a heterotrophic, Gram-negative, rod-shaped bacterium mainly found in areas with a warm climate

Aeromonas_sobria

CC ID: 703577
Seq. Order: 8
Data Storage Type: NUMERIC
Max Length: 1
Required: No
Primary Key: No
Status: Active
Description:

a genus of Gram-negative, facultative anaerobic, rod-shaped bacteria that morphologically resembles members of the family Enterobacteriaceae

Alcaligenes_faecalis

CC ID: 703579
Seq. Order: 9
Data Storage Type: NUMERIC
Max Length: 1
Required: No
Primary Key: No
Status: Active
Description:

a species of Gram-negative, rod-shaped bacteria commonly found in the environment.

Alcaligenes_xylosoxidans

CC ID: 703580
Seq. Order: 10
Data Storage Type: NUMERIC
Max Length: 1
Required: No
Primary Key: No
Status: Active
Description:

Achromobacter xylosoxidans (formerly Alcaligenes xylosoxidans) is a Gram-negative, aerobic, oxidase- and catalase-positive, motile bacterium with peritrichous flagella, from the genus Achromobacter. It is generally found in wet environments

Bacillus_sp.

CC ID: 703582
Seq. Order: 11
Data Storage Type: NUMERIC
Max Length: 1
Required: No
Primary Key: No
Status: Active
Description:

a genus of gram-positive, rod-shaped bacteria and a member of the phylum Firmicutes. Bacillus species can be obligate aerobes (oxygen reliant), or facultative anaerobes (having the ability to be aerobic or anaerobic)

Bacillus_cereus

CC ID: 703581
Seq. Order: 12
Data Storage Type: NUMERIC
Max Length: 1
Required: No
Primary Key: No
Status: Active
Description:

a Gram-positive, rod-shaped, aerobic, motile, beta hemolytic bacterium commonly found in soil and food

Burkholderia_cepacia

CC ID: 703583
Seq. Order: 13
Data Storage Type: NUMERIC
Max Length: 1
Required: No
Primary Key: No
Status: Active
Description:

is an opportunistic human pathogen that most often causes pneumonia in immunocompromised individuals with underlying lung disease

Chromobacterium_violaceum

CC ID: 703586
Seq. Order: 14
Data Storage Type: NUMERIC
Max Length: 1
Required: No
Primary Key: No
Status: Active
Description:

a Gram-negative, facultative anaerobic, non-sporing coccobacillus. It is motile with the help of a single flagellum which is located at the pole of the coccobacillus. It is part of the normal flora of water and soil of tropical and sub-tropical regions of the world

Citrobacter_sp.

CC ID: 703588
Seq. Order: 15
Data Storage Type: NUMERIC
Max Length: 1
Required: No
Primary Key: No
Status: Active
Description:

a genus of Gram-negative coliform bacteria in the Enterobacteriaceae family

Citrobacter_freundii

CC ID: 703587
Seq. Order: 16
Data Storage Type: NUMERIC
Max Length: 1
Required: No
Primary Key: No
Status: Active
Description:

a species of facultative, anaerobic Gram-negative bacilli of the Enterobacteriaceae family.The bacteria are long bacterial rods C. freundii is a soil organism, but can also be found in water, sewage, food and in the intestinal tracts of animals and humans.

Clostridium_sp.

CC ID: 703589
Seq. Order: 17
Data Storage Type: NUMERIC
Max Length: 1
Required: No
Primary Key: No
Status: Active
Description:

a genus of Gram-positive bacteria, which includes several significant human pathogens, most notably the causative agent of botulism. Clostridium species inhabit soils and the intestinal tract of animals, including humans

Corynebacterium_sp.

CC ID: 703590
Seq. Order: 18
Data Storage Type: NUMERIC
Max Length: 1
Required: No
Primary Key: No
Status: Active
Description:

a genus of bacteria that are gram-positive and aerobic. They are bacilli (rod-shaped), and in some phases of life they are, more particularly, club-shaped

Enterics

CC ID: 703592
Seq. Order: 19
Data Storage Type: NUMERIC
Max Length: 1
Required: No
Primary Key: No
Status: Active
Description:

bacteria are bacteria of the intestines, and may refer to: Gut flora, which are always present and usually harmless. Pathogenic bacteria of bacterial gastroenteritis. The taxonomic family Enterobacteriaceae

Enterobacter_sp.

CC ID: 703593
Seq. Order: 20
Data Storage Type: NUMERIC
Max Length: 1
Required: No
Primary Key: No
Status: Active
Description:

a genus of common Gram-negative, facultatively anaerobic, rod-shaped, non-spore-forming bacteria of the family Enterobacteriaceae

Enterococcus_sp.

CC ID: 703594
Seq. Order: 21
Data Storage Type: NUMERIC
Max Length: 1
Required: No
Primary Key: No
Status: Active
Description:

a large genus of lactic acid bacteria of the phylum Firmicutes. Enterococci are Gram-positive cocci that often occur in pairs (diplococci) or short chains, and are difficult to distinguish from streptococci on physical characteristics alone

Escherichia_coli

CC ID: 703595
Seq. Order: 22
Data Storage Type: NUMERIC
Max Length: 1
Required: No
Primary Key: No
Status: Active
Description:

is a gram-negative, facultatively anaerobic, rod-shaped bacterium of the genus Escherichia that is commonly found in the lower intestine of warm-blooded organisms (endotherms)

Fungi

CC ID: 703596
Seq. Order: 23
Data Storage Type: NUMERIC
Max Length: 1
Required: No
Primary Key: No
Status: Active
Description:

Fungi can be single celled or very complex multicellular organisms. They are found in just about any habitat but most live on the land, mainly in soil or on plant material rather than in sea or fresh water

Gram_Negative_Non_fermenter

CC ID: 703597
Seq. Order: 24
Data Storage Type: NUMERIC
Max Length: 1
Required: No
Primary Key: No
Status: Active
Description:

a taxonomic heterogene group of bacteria of the division Proteobacteria, which can not catabolize glucose and therefore are not able to ferment. The coccoid or bacillary bacteria can be found in soil or wet areas.

Gram_Negative_Rod

CC ID: 703598
Seq. Order: 25
Data Storage Type: NUMERIC
Max Length: 1
Required: No
Primary Key: No
Status: Active
Description:

a group of bacteria that do not retain the crystal violet stain used in the Gram staining method of bacterial differentiation

Gram_Positive_Rod

CC ID: 703600
Seq. Order: 26
Data Storage Type: NUMERIC
Max Length: 1
Required: No
Primary Key: No
Status: Active
Description:

are a bacteria that give a positive result in the Gram stain test

Gram_Negative_pleomorphic_Rod

CC ID: 703599
Seq. Order: 27
Data Storage Type: NUMERIC
Max Length: 1
Required: No
Primary Key: No
Status: Active
Description:

a group of bacteria that can cause respiratory problems

Klebsiella_pneumoniae

CC ID: 703603
Seq. Order: 28
Data Storage Type: NUMERIC
Max Length: 1
Required: No
Primary Key: No
Status: Active
Description:

a Gram-negative, nonmotile, encapsulated, lactose-fermenting, facultative anaerobic, rod-shaped bacterium

Klebsiella_oxytoca

CC ID: 703602
Seq. Order: 29
Data Storage Type: NUMERIC
Max Length: 1
Required: No
Primary Key: No
Status: Active
Description:

a Gram-negative, rod-shaped bacterium that is closely related to K. pneumoniae

Listonella_anguillarum

CC ID: 703604
Seq. Order: 30
Data Storage Type: NUMERIC
Max Length: 1
Required: No
Primary Key: No
Status: Active
Description:

a Gram-negative marine bacterium in the family Vibrionaceae. The correct name nowadays is Vibrio anguillarum

Mixed_anaerobes

CC ID: 703606
Seq. Order: 31
Data Storage Type: NUMERIC
Max Length: 1
Required: No
Primary Key: No
Status: Active
Description:

are bacteria do not grow on solid media in room air. Anaerobic bacteria are a common cause of infections, some of which can be serious and life-threatening

Mixed_Bacterial_Growth

CC ID: 703605
Seq. Order: 32
Data Storage Type: NUMERIC
Max Length: 1
Required: No
Primary Key: No
Status: Active
Description:

Bacteria are present but cannot be identified to species

Moraxella_sp.

CC ID: 703608
Seq. Order: 33
Data Storage Type: NUMERIC
Max Length: 1
Required: No
Primary Key: No
Status: Active
Description:

a genus of Gram-negative bacteria in the Moraxellaceae family and often associated with respiratory disease.

Moraxella_osloensis

CC ID: 703607
Seq. Order: 34
Data Storage Type: NUMERIC
Max Length: 1
Required: No
Primary Key: No
Status: Active
Description:

a species of Gram-negative oxidase positive, aerobic bacteria within the family Moraxellaceae.

Morganella_sp.

CC ID: 703610
Seq. Order: 35
Data Storage Type: NUMERIC
Max Length: 1
Required: No
Primary Key: No
Status: Active
Description:

a species of gram-negative bacteria.

Morganella_morganii

CC ID: 703609
Seq. Order: 36
Data Storage Type: NUMERIC
Max Length: 1
Required: No
Primary Key: No
Status: Active
Description:

a species of gram-negative bacteria. It has a commensal relationship within the intestinal tracts of humans, mammals, and reptiles as normal flora

Mycobacterium_sp._(Rapidly-Growing)

CC ID: 703611
Seq. Order: 37
Data Storage Type: NUMERIC
Max Length: 1
Required: No
Primary Key: No
Status: Active
Description:

The genus includes pathogens known to cause serious diseases in mammals, including tuberculosis. Mycobacteria have been observed to grow in a mold-like fashion on the surface of cultures.

Negative_Culture_Anaerobes

CC ID: 703612
Seq. Order: 38
Data Storage Type: NUMERIC
Max Length: 1
Required: No
Primary Key: No
Status: Active
Description:

No anaerobic bacteria were present

Negative_Culture_Salmonella

CC ID: 703613
Seq. Order: 39
Data Storage Type: NUMERIC
Max Length: 1
Required: No
Primary Key: No
Status: Active
Description:

Salmonella bacteria was not present

Nocardia_sp.

CC ID: 703615
Seq. Order: 40
Data Storage Type: NUMERIC
Max Length: 1
Required: No
Primary Key: No
Status: Active
Description:

a genus of weakly staining Gram-positive, catalase-positive, rod-shaped bacteria. Nocardia species are found worldwide in soil rich in organic matter.

Ochrobactrum_sp.

CC ID: 703616
Seq. Order: 41
Data Storage Type: NUMERIC
Max Length: 1
Required: No
Primary Key: No
Status: Active
Description:

a bacterial genus that belongs to Brucellaceae in the Rhizobiales

Pantoea_sp.

CC ID: 703617
Seq. Order: 42
Data Storage Type: NUMERIC
Max Length: 1
Required: No
Primary Key: No
Status: Active
Description:

a genus of Gram-negative bacteria of the family Enterobacteriaceae, recently separated from the Enterobacter genus

Pasteurella_sp.

CC ID: 703618
Seq. Order: 43
Data Storage Type: NUMERIC
Max Length: 1
Required: No
Primary Key: No
Status: Active
Description:

a genus of Gram-negative, facultatively anaerobic bacteria. Many Pasteurella species are zoonotic pathogens, and humans can acquire an infection from domestic animal bites

Penicillium_sp.

CC ID: 703619
Seq. Order: 44
Data Storage Type: NUMERIC
Max Length: 1
Required: No
Primary Key: No
Status: Active
Description:

a genus of ascomycetous fungi of major importance in the natural environment as well as food and drug production

Photobacterium_damselae

CC ID: 703620
Seq. Order: 45
Data Storage Type: NUMERIC
Max Length: 1
Required: No
Primary Key: No
Status: Active
Description:

a gram-negative rod-shaped bacterium that causes disease in fish.

Providencia_sp.

CC ID: 703624
Seq. Order: 46
Data Storage Type: NUMERIC
Max Length: 1
Required: No
Primary Key: No
Status: Active
Description:

a Gram negative, motile bacterium of the family Enterobacteriaceae and can cause urinary tract infections

Proteus_sp.

CC ID: 703622
Seq. Order: 47
Data Storage Type: NUMERIC
Max Length: 1
Required: No
Primary Key: No
Status: Active
Description:

Proteus bacilli are widely distributed in nature as saprophytes, being found in decomposing animal matter, sewage, manure soil, and human and animal feces. They are opportunistic pathogens, commonly responsible for urinary and septic infections.

Proteus_mirabilis

CC ID: 703621
Seq. Order: 48
Data Storage Type: NUMERIC
Max Length: 1
Required: No
Primary Key: No
Status: Active
Description:

a Gram-negative, facultatively anaerobic, rod-shaped bacterium. It shows swarming motility and urease activity. It is widely distributed in soil and water.

Proteus_vulgaris

CC ID: 703623
Seq. Order: 49
Data Storage Type: NUMERIC
Max Length: 1
Required: No
Primary Key: No
Status: Active
Description:

a rod-shaped, nitrate-reducing, indole+ and catalase-positive, hydrogen sulfide-producing, Gram-negative bacterium that inhabits the intestinal tracts of humans and animals. It can be found in soil, water, and fecal matter.

Pseudomonas_sp.

CC ID: 703628
Seq. Order: 50
Data Storage Type: NUMERIC
Max Length: 1
Required: No
Primary Key: No
Status: Active
Description:

a genus of Gram-negative, aerobic Gammaproteobacteria, belonging to the family Pseudomonadaceae

Pseudomonas_aeruginosa

CC ID: 703625
Seq. Order: 51
Data Storage Type: NUMERIC
Max Length: 1
Required: No
Primary Key: No
Status: Active
Description:

a common Gram-negative, rod-shaped bacterium that can cause disease in plants and animals, including humans

Pseudomonas_pseudoalcaligenes

CC ID: 703626
Seq. Order: 52
Data Storage Type: NUMERIC
Max Length: 1
Required: No
Primary Key: No
Status: Active
Description:

an aerobic, Gram-negative soil bacterium.

Pseudomonas_putida

CC ID: 703627
Seq. Order: 53
Data Storage Type: NUMERIC
Max Length: 1
Required: No
Primary Key: No
Status: Active
Description:

a Gram-negative, rod-shaped, saprotrophic soil bacterium

Rhodococcus_equi

CC ID: 703629
Seq. Order: 54
Data Storage Type: NUMERIC
Max Length: 1
Required: No
Primary Key: No
Status: Active
Description:

a Gram-positive coccobacillus bacterium. The organism is commonly found in dry and dusty soil

Salmonella_sp.

CC ID: 703630
Seq. Order: 55
Data Storage Type: NUMERIC
Max Length: 1
Required: No
Primary Key: No
Status: Active
Description:

a genus of rod-shaped (bacillus) gram-negative bacterium of the Enterobacteriaceae family. The two species of Salmonella are Salmonella enterica and Salmonella bongori. S. enterica subspecies are found worldwide in all warm-blooded animals, and in the environment. S. bongori is restricted to cold-blooded animals particularly reptiles. Strains of Salmonella cause illnesses such as typhoid fever, paratyphoid fever, and food poisoning

Shewanella_sp.

CC ID: 703634
Seq. Order: 56
Data Storage Type: NUMERIC
Max Length: 1
Required: No
Primary Key: No
Status: Active
Description:

family of marine bacteria, some species within it were formerly classed as Alteromonas. Shewanella bacteria are a normal component of the surface flora of fish and are implicated in fish spoilage.

Shewanella_putrefaciens

CC ID: 703633
Seq. Order: 57
Data Storage Type: NUMERIC
Max Length: 1
Required: No
Primary Key: No
Status: Active
Description:

a Gram-negative pleomorphic bacterium. It has been isolated from marine environments It is also one of the organisms associated with the odor of rotting fish, as it is a marine organism which produces trimethylamine

Sphingomonas_paucimobilis

CC ID: 703635
Seq. Order: 58
Data Storage Type: NUMERIC
Max Length: 1
Required: No
Primary Key: No
Status: Active
Description:

an aerobic Gram-negative soil bacillus that has a single polar flagellum with slow motility.

Staphylococcus_sp.

CC ID: 703636
Seq. Order: 59
Data Storage Type: NUMERIC
Max Length: 1
Required: No
Primary Key: No
Status: Active
Description:

a genus includes at least 40 species. Most are harmless and reside normally on the skin and mucous membranes of humans and other organisms. Found worldwide, they are a small component of soil microbial flora.

Streptococcus_sp.

CC ID: 703637
Seq. Order: 60
Data Storage Type: NUMERIC
Max Length: 1
Required: No
Primary Key: No
Status: Active
Description:

a genus of coccus (spherical) Gram-positive bacteria belonging to the phylum Firmicutes

Tsukamurella_sp.

CC ID: 703638
Seq. Order: 61
Data Storage Type: NUMERIC
Max Length: 1
Required: No
Primary Key: No
Status: Active
Description:

A genus of facultatively pathogenic actinomycetes that infect immunocompromised hosts, sites with foreign body or chronic infections

Vibrio_sp.

CC ID: 703644
Seq. Order: 62
Data Storage Type: NUMERIC
Max Length: 1
Required: No
Primary Key: No
Status: Active
Description:

a genus of Gram-negative bacteria, possessing a curved-rod shape. Several species of which can cause foodborne infection, usually associated with eating undercooked seafood. Typically found in seawater.

Vibrio_alginolyticus

CC ID: 703640
Seq. Order: 63
Data Storage Type: NUMERIC
Max Length: 1
Required: No
Primary Key: No
Status: Active
Description:

a Gram-negative marine bacterium. It is medically important since it causes wound infection

Vibrio_fluvialis

CC ID: 703641
Seq. Order: 64
Data Storage Type: NUMERIC
Max Length: 1
Required: No
Primary Key: No
Status: Active
Description:

V. fluvialis can be found in salt waters globally and also has the potential to infect both humans and a variety of crustaceans.

Vibrio_harveyi

CC ID: 703642
Seq. Order: 65
Data Storage Type: NUMERIC
Max Length: 1
Required: No
Primary Key: No
Status: Active
Description:

V. harveyi can be found free-swimming in tropical marine waters, commensally in the gut microflora of marine animals, and as both a primary and opportunistic pathogen of marine animals

Vibrio_parahaemolyticus

CC ID: 703643
Seq. Order: 66
Data Storage Type: NUMERIC
Max Length: 1
Required: No
Primary Key: No
Status: Active
Description:

a curved, rod-shaped, Gram-negative bacterium found in brackish saltwater.

Vibrio_vulnificus

CC ID: 703645
Seq. Order: 67
Data Storage Type: NUMERIC
Max Length: 1
Required: No
Primary Key: No
Status: Active
Description:

a species of Gram-negative, motile, curved, rod-shaped (bacillus), pathogenic bacteria of the genus Vibrio. Present in marine environments such as estuaries, brackish ponds, or coastal areas

Negative_Culture_Vibrio_sp.

CC ID: 703614
Seq. Order: 68
Data Storage Type: NUMERIC
Max Length: 1
Required: No
Primary Key: No
Status: Active
Description:

No Vibrio sp. were present

Isolated

CC ID: 703601
Seq. Order: 69
Data Storage Type: Character
Max Length: 50
Required: No
Primary Key: No
Status: Active
Description:

Indicates what specific bacteria was isolated

Sensitivity_Test_Y_or_N

CC ID: 703632
Seq. Order: 70
Data Storage Type: CHARACTER
Max Length: 1
Required: No
Primary Key: No
Status: Active
Description:

Sensitivity tests expose the bacteria to antibacterial agents to determine which would be most effective at killing the bacteria. (Y)es or (N)o response

Allowed Values: Y N

Cause_of_Death_or_Ilness_Identified

CC ID: 703585
Seq. Order: 71
Data Storage Type: CHARACTER
Max Length: 200
Required: No
Primary Key: No
Status: Active
Description:

If the cause of death was positively determined by necropsy, histology, or bacteriology the results are diagnosis is listed here

Cause_of_Death_or_Illness_Bacteria_Related _Y_or_N

CC ID: 703584
Seq. Order: 72
Data Storage Type: CHARACTER
Max Length: 1
Required: No
Primary Key: No
Status: Active
Description:

If the diagnosis indicated that bacterial infection was the primary cause of death, it is noted here

Allowed Values: Y N

Support Roles

Data Steward

CC ID: 703646
Date Effective From: 2002
Date Effective To:
Contact (Person): Higgins, Benjamin
Address: 4700 Avenue U
Galveston, TX 77551
Email Address: ben.higgins@noaa.gov
Phone: 409-766-3670
Contact Instructions:

Phone or email

Distributor

CC ID: 703647
Date Effective From: 2017
Date Effective To:
Contact (Organization): National Centers for Environmental Information - Silver Spring, Maryland (NCEI-MD)
Address: NOAA/NESDIS E/OC SSMC3, 4th Floor, 1351 East-West Highway
Silver Spring, MD 20910-3282
Phone: (301) 713-3277
Contact Instructions:

Phone or email

Metadata Contact

CC ID: 703648
Date Effective From: 2002
Date Effective To:
Contact (Person): Higgins, Benjamin
Address: 4700 Avenue U
Galveston, TX 77551
Email Address: ben.higgins@noaa.gov
Phone: 409-766-3670
Contact Instructions:

Contact by email preferred.

Point of Contact

CC ID: 703649
Date Effective From: 2016
Date Effective To:
Contact (Person): Baumer, Tim J
Address: 4700 Avenue U
Galveston, TX 77551
Email Address: tim.baumer@noaa.gov
Phone: 409-766-3784
Contact Instructions:

Contact by email preferred.

Distribution Information

Distribution 1

CC ID: 703650
Start Date: 2017
End Date: Present
Download URL: https://www.nodc.noaa.gov/archive/arc0102/0157625/2.2/data/0-data/Galveston_Turtle_Program/26903/CSV/Renamed_Data_Table.csv
Distributor: National Centers for Environmental Information - Silver Spring, Maryland (NCEI-MD) (2017 - Present)
File Name: Rename_Data_Table.csv
Compression: Uncompressed

Catalog Details

Catalog Item ID: 50698
GUID: gov.noaa.nmfs.inport:50698
Metadata Record Created By: Lee M Weinberger
Metadata Record Created: 2017-12-07 14:45+0000
Metadata Record Last Modified By: Lee M Weinberger
Metadata Record Last Modified: 2021-04-29 12:26+0000
Metadata Record Published: 2021-04-29
Owner Org: SEFSC
Metadata Publication Status: Published Externally
Do Not Publish?: N
Metadata Next Review Date: 2022-04-30