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Description of database fields

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field namecommentsdata typeallowed valuesrequired
idprimary keyint - yes
isolateisolate nametext - yes
countrycountry where strain was isolatedtext Afghanistan
Åland Islands
Albania
Algeria
American Samoa
Andorra
Angola
Anguilla
Antarctica
Antigua and Barbuda
Argentina
Armenia
Aruba
Australia
Austria
Azerbaijan
Bahamas
Bahrain
Bangladesh
Barbados
Belarus
Belgium
Belize
Benin
Bermuda
Bhutan
Bolivia
Bonaire, Sint Eustatius and Saba
Bosnia and Herzegovina
Botswana
Bouvet Island
Brazil
British Indian Ocean Territory
British Virgin Islands
Brunei
Bulgaria
Burkina Faso
Burundi
Cambodia
Cameroon
Canada
Cape Verde
Cayman Islands
Central African Republic
Chad
Chile
China
China [Hong Kong]
China [Macao]
Christmas Island
Cocos (Keeling) Islands
Colombia
Comoros
Congo [DRC]
Congo [Republic]
Cook Islands
Costa Rica
Croatia
Cuba
Curaçao
Cyprus
Czech Republic
Denmark
Djibouti
Dominica
Dominican Republic
East Timor
Ecuador
Egypt
El Salvador
Equatorial Guinea
Eritrea
Estonia
Ethiopia
Falkland Islands (Malvinas)
Faroe Islands
Fiji
Finland
France
French Guiana
French Polynesia
French Southern Territories
Gabon
Georgia
Germany
Ghana
Gibraltar
Greece
Greenland
Grenada
Guadeloupe
Guam
Guatemala
Guernsey
Guinea
Guinea-Bissau
Guyana
Haiti
Heard Island and McDonald Islands
Holy See
Honduras
Hungary
Iceland
India
Indonesia
Iran
Iraq
Ireland
Isle of Man
Israel
Italy
Ivory Coast
Jamaica
Japan
Jersey
Jordan
Kazakhstan
Kenya
Kiribati
Kuwait
Kyrgyzstan
Laos
Latvia
Lebanon
Lesotho
Liberia
Libya
Liechtenstein
Lithuania
Luxembourg
Madagascar
Malawi
Malaysia
Maldives
Mali
Malta
Marshall Islands
Martinique
Mauritania
Mauritius
Mayotte
Mexico
Micronesia
Moldova
Monaco
Mongolia
Montenegro
Montserrat
Morocco
Mozambique
Myanmar
Namibia
Nauru
Nepal
New Caledonia
New Zealand
Nicaragua
Niger
Nigeria
Niue
Norfolk Island
Northern Mariana Islands
North Korea
North Macedonia
Norway
Oman
Pakistan
Palau
Palestinian territories
Panama
Papua New Guinea
Paraguay
Peru
Philippines
Pitcairn
Poland
Portugal
Puerto Rico
Qatar
Réunion
Romania
Russia
Rwanda
Saint Barthélemy
Saint Helena
Saint Kitts and Nevis
Saint Lucia
Saint Martin (French Part)
Saint Pierre and Miquelon
Saint Vincent and the Grenadines
Samoa
San Marino
São Tomé and Príncipe
Sark
Saudi Arabia
Senegal
Serbia
Seychelles
Sierra Leone
Singapore
Sint Maarten (Dutch part)
Slovakia
Slovenia
Solomon Islands
Somalia
South Africa
South Georgia and the South Sandwich Islands
South Korea
South Sudan
Spain
Sri Lanka
Sudan
Suriname
Svalbard and Jan Mayen Islands
Swaziland
Sweden
Switzerland
Syria
Taiwan
Tajikistan
Tanzania
Thailand
The Gambia
The Netherlands
Togo
Tokelau
Tonga
Trinidad and Tobago
Tunisia
Turkey
Turkmenistan
Turks and Caicos Islands
Tuvalu
Uganda
UK
Ukraine
United Arab Emirates
Uruguay
USA
US Minor Outlying Islands
US Virgin Islands
Uzbekistan
Vanuatu
Venezuela
Vietnam
Wallis and Futuna Islands
Western Sahara
Yemen
Zambia
Zimbabwe
Unknown
yes
regionRegion/city etc inside countrytext - no
latitudedecimal degrees formatfloat - no
longitudedecimal degrees formatfloat - no
yearyear of isolationint min: 1900; max: 2019 no
epidemiological_yearepidemiological year for study in format mm/yyyy-mm/yyyytext - no
age_yrage in yearsint - no
age_mthmonth part of age (1-12) for patients under 1 year oldint - no
sexsex of patient/carriertext male
female
no
coinfectionsplease put other infections in comments fieldtext Burkholderia pseudomallei
Dengue virus
Hantavirus
HIV
Orientia tsutsugamushi
Plasmodium falciparum
no
diseaseplease put other diseases in comments fieldtext carrier
mild influenza-like illness
Weil's syndrome
meningitis/meningoencephalitis
pulmonary haemorrhage with respiratory failure
other
no
hostplease put the host from which it was isolatedtext armadillo
bandicoot
bat
bovine
buffalo
canine
caprine
capybara
coypu
equine
feline
fox
frog
giant pouched rat
hedgehog
human
mongoose
mouse
opossum
other
otter
porcine
raccoon
rat
reptile
shrew
skunk
soil
swine
toad
vole
water
weasel
no
sourcebiological source of sampletext blood
kidney
liver
lung
spleen
urine
no
isolationthe strain has been isolated and culturedtext yes
no
no
epidemiologytext carrier
healthy contact
sporadic case
endemic
epidemic
pandemic
no
speciestext Leptospira alexanderi
Leptospira alstonii
Leptospira biflexa
Leptospira borgpetersenii
Leptospira broomii
Leptospira fainei
Leptospira idonii
Leptospira inadai
Leptospira interrogans
Leptospira kirschneri
Leptospira kmetyi
Leptospira licerasiae
Leptospira mayottensis
Leptospira meyeri
Leptospira noguchii
Leptospira santarosai
Leptospira terpstrae
Leptospira vanthielii
Leptospira weilii
Leptospira wolbachii
Leptospira wolffii
Leptospira yanagawae
Leptospira sp.
yes
serovarif you select 'other' please provide further details in the comments fieldtext Abramis
Agogo
Aguaruna
Alexi
Alice
Altodouro
Andamana
Anhoa
Arborea
Arenal
Argentinensis
Atchafalaya
Atlantae
Australis
Autumnalis
Babudieri
Bafani
Bajan
Bakeri
Balboa
Balcanica
Ballum
Bananal
Bangkinang
Bangkok
Banna
Bataviae
Benjamini
Beye
Biggis
Bim
Bindjei
Birkini
Bogvere
Borincana
Brasiliensis
Bratislava
Brem
Bravo
Broomi
Buenos Aires
Bulgarica
Butembo
Camlo
Canalzonae
Canicola
Caribe
Carimagua
Carlos
Castellonis
Celledoni
Ceylonica
Chagres
Claytoni
Copenhageni
Corredores
Costa Rica
Codice
Coxi
Cristobali
Cuica
Cynopteri
Dadas
Dakota
Darien
Dehong
Dikkeni
Djasiman
Djatzi
Erinaceiauriti
Evansi
Fluminense
Fortbragg
Fugis
Galtoni
Gatuni
Gem
Gengma
Georgia
Geyaweera
Goiano
Gorgas
Grippotyphosa
Grippotyphosa type Duyster
Grippotyphosa type Moskva
Guangdong
Guaratuba
Guaricura
Guidae
Gurungi
Haemolytica
Hainan
Hamptoni
Hardjo
Hardjo type Bovis
Hardjo type Prajitno
Hawain
Hebdomadis
Hekou
Holland
Hongchon
Honghe
Hualin
Huallaga
Huanuco
Hurstbridge
Hurstbridge type HB6
Icterohaemorrhagiae
Istrica
Jalna
Javanica
Jonsis
Jules
Kabura
Kalimantani
Kambale
Kamituga
Kanana
Kaup
Kennewicki
Kenya
Khorat
Kisuba
Kobbe
Kremastos
Kunming
Kuwait
Kwale
Lai
Lai type Langkawi
Lambwe
Langati
Lanka
Lichuan
Lincang
Linhai
Lora
Losbanos
Louisiana
Luis
Lyme
Machiguenga
Malaya
Malaysia
Mangus
Manhao
Manhao 3
Manilae
Mankarso
Manzhuang
Maru
Medanensis
Mengdeng
Mengding
Mengla
Menglian
Mengma
Mengpeng
Mengrun
Menoni
Mini
Mogden
Mooris
Mozdok
Muelleri
Muenchen
Mujunkumi
Mwogolo
Myocastoris
Naam
Nanding
Nanla
Nanxi
Navet
Ndahambukuje
Ndambari
Nicaragua
Nigeria
Noumea
Nona
Nyanza
Orleans
other
Paidjan
Panama
Patoc
Perameles
Peru
Peruviana
Pina
Pinchang
Poi
Polonica
Pomona
Portblairi
Portlandvere
Princestown
Proechimys
Pyrogenes
Qingshui
Rachmati
Rama
Ramisi
Ranarum
Ratnapura
Recreo
Ricardi
Rio
Rioja
Robinsoni
Room22
Roumanica
Ruparupae
Rushan
Sanmartini
Santarosa
Saopaulo
Sarmin
Saxkoebing
Schueffneri
Sejroe
Semaranga
Sentot
Shermani
Sichuan
Smithi
Sofia
Sokoine
Sorexjalna
Soteropolitana
Srebarna
Sulzerae
Sumneri
Szwajizak
Tabaquite
Tarassovi
Tingomaria
Tonkini
Topaz
Trinidad
Tropica
Tsaratsovo
Tunis
Unipertama
Valbuzzi
Vanderhoedeni
Varela
Vargonicas
Varillal
Vughia
Waskurin
Weaveri
Weerasinghe
Whitcombi
Wolffi
Worsfoldi
Yaan
Yeonchon
Yunnan
Yunxian
Zanoni
Zhenkang
no
serogroupif you select 'other' please provide further details in the comments fieldtext Andaman
Andamana
Australis
Autumnalis
Ballum
Bataviae
Canicola
Celledoni
Cynopteri
Djasiman
Grippotyphosa
Hebdomadis
Holland
Hurstbridge
Icterohaemorrhagiae
Iquitos
Javanica
Louisiana
Lyme
Manhao
Mini
other
Panama
Pomona
Pyrogenes
Ranarum
Sarmin
Sehgali
Sejroe
Semaranga
Shermani
Tarassovi
no
MLVA_profileplease put the consecutive number of repeats in the following order: VNTR4-VNTR7-VNTR9-VNTR10-VNTR11-VNTR19-VNTR23-VNTR31 (e.g.: 00-01-04-12-23-02-08-ND)text - no
ENA_accessionENA SRA accession number to access short read datatext - no
rMLST_database_accessionAccession number in rMLST genome databaseint - no
commentsany other commentstext - no
sendersender unique name, link to usersint Click for list of sender ids yes
curatorcurator who entered data,link to usersint Click for list of curator ids yes
date_entereddate first entereddate - yes
datestampdate last modifieddate - yes