Echinothrix diadema

(Linnaeus, 1758) · species

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Animalia/Echinodermata/Echinoidea/Diadematoida/Diadematidae/Echinothrix

At a glance

Occurrence records6 045

Data sources10

Biological traits6

DNA specimens11

eDNA detections154

Sources10 archives

Databases and archives Echinothrix diadema's data was compiled from.

WikipediaWikimedia Foundation4 languages↗

BioWikiNetmultilingual Wikipediamultilingual↗

GBIFGlobal Biodiversity Information Facility3 069 records↗

OBISOcean Biodiversity Information System2 976 records↗

ENAEuropean Nucleotide Archive · EMBL-EBI154 eDNA detections↗

BOLD SystemsCentre for Biodiversity Genomics11 specimens↗

NPASSNat. Product Activity & Species Sourcecompounds↗

Open Tree of LifeOpenTreephylogeny backbone↗

Catalogue of LifeCOLtaxonomy↗

GLoBIGlobal Biotic Interactionsbiotic interactions↗

On this page6 sections

Every layer below draws on the sources above — open one to explore it, or use ← → to move between tabs.

NarrativeWikipediaarticle

Traits & measurements1 literature sources6 traits

Chemical compositionNPASS3 compounds

Occurrence & distributionGBIF · OBIS6 045 records

Environmental DNA1 datasets · 2 countries154 detections

DNA & barcodingBOLD11 specimens

01Narrative

The diadema urchin or blue-black urchin (Echinothrix diadema) is a species of tropical sea urchin, member of the Diadematidae family.

No narrative description available for this taxon yet.

02Traits & measurements

SourcesSeaLifeBase

Size & morphology1

Body length20 cm

Habitat & environment2

Habitat saltwateryes

Habitat zonereef-associated

Uses & economy1

Commercial importancecommercial

Other traits2

Depth max40 m

Depth min1 m

03Chemical composition3 compounds

Compounds documented for Echinothrix diadema across natural-product and food-composition databases — not just the ~150 nutrients on a classic label ("nutritional dark matter").

Compound class profile3 classes

Simple coumarins1

Monomeric stilbenes1

Oleanane triterpenoids1

Documented compounds3 total

Tissue Source Quantified only

Compound	Amount	Source
1,3-Dimethoxy-5-(2-phenylethenyl)benzene	present	NPASS
Methyl Oleanolate	present	NPASS
Scopoletin	present	NPASS

05DNA & barcoding11 specimens

A DNA barcode is a short, standardised stretch of genes that works like a fingerprint — enough to tell one species from another. Below is the molecular trace Echinothrix diadema has left across the world's sequence archives.

At a glance

DNA specimens11

BINs3

Marker genes2

eDNA detections154

Countries5

The DNA barcodethe species' typical barcode, built from every sequenced specimen

COI-5P658 bp consensus9 specimens

ACGT

▸ drag or hover over the strip to read any position — letter and how much it varies

Violet ticks below the strip = positions where individuals differ; flat = the species' unchanging signature. 79% of positions are identical in every specimen.

Where individuals differ — all 136 variable positions, in barcode order

1Ghighly variable

4Cvariable

11Cvariable

16Cmostly conserved

19Tvariable

22Avariable

28Avariable

34Gvariable

40Avariable

43Amostly conserved

46Cmostly conserved

49Cmostly conserved

58Avariable

64Cmostly conserved

73Gvariable

74Cvariable

82Avariable

85Tvariable

88Ahighly variable

91Cvariable

94Chighly variable

97Amostly conserved

106Tvariable

112Tvariable

115Cvariable

118Tvariable

127Tvariable

130Tvariable

139Cmostly conserved

140Tvariable

145Avariable

151Cvariable

154Cvariable

163Ahighly variable

169Avariable

181Tvariable

184Avariable

190Amostly conserved

193Cvariable

196Avariable

197Cvariable

199Gvariable

202Tvariable

205Chighly variable

206Cvariable

208Avariable

217Avariable

226Cmostly conserved

238Tmostly conserved

241Gvariable

247Cvariable

259Cmostly conserved

262Gmostly conserved

263Tmostly conserved

268Gmostly conserved

271Tvariable

274Cvariable

277Cvariable

286Cvariable

289Tvariable

290Tvariable

298Avariable

301Cmostly conserved

310Gvariable

316Avariable

319Amostly conserved

322Avariable

334Cvariable

343Tvariable

346Amostly conserved

352Cvariable

355Avariable

358Cvariable

367Cmostly conserved

373Cmostly conserved

376Amostly conserved

379Tvariable

385Tvariable

386Cvariable

391Tmostly conserved

394Tvariable

400Cmostly conserved

403Tmostly conserved

412Cvariable

418Tvariable

421Cvariable

424Avariable

433Tvariable

436Tvariable

442Tmostly conserved

451Avariable

454Cvariable

457Tvariable

460Tvariable

472Tvariable

475Tvariable

484Tmostly conserved

487Tmostly conserved

494Cvariable

496Amostly conserved

499Cvariable

505Tvariable

508Gvariable

511Gvariable

514Avariable

517Avariable

520Tvariable

523Tvariable

526Ahighly variable

529Cvariable

532Cvariable

535Tvariable

538Tvariable

541Avariable

544Cvariable

550Tvariable

553Tvariable

556Tmostly conserved

557Cvariable

565Gvariable

+16 more variable positions not shown

GACCCTTTATCTAATCTTTGGAGCTTGAGCCGGGATGGTAGGAACCGCCATGAGAGTAATTATCCGAGCTGAGCTAGCTCAACCTGGATC …

Variant network

Each circle is a barcode variant; bigger = more specimens, colour = region. Lines join the most similar variants and the tick marks count the mutations between them — a tight cluster is one “dialect”, a long line a more divergent lineage. Click a circle to list its actual specimens.

Diversity (π)10.6%

Haplotypes7

BINs3

Most divergent pair16.0%

N.AmericaEuropeOtherOceania

Closest relatives by DNA barcode

The species whose COI barcode is most similar to this one — a quick “who is this most like”. The percentage is how much the barcode differs; it approximates, but is not, the full evolutionary tree.

Echinothrix calamarissame genus7.6%Diadema savignyisame family10.3%Diadema antillarumsame family12.0%Diadema mexicanumsame family12.9%Diadema palmerisame family14.4%

Marker genes sequenced

★ the standard DNA barcode for this group — the short region actually read to tell this species apart. The rest are extra genes sequenced along the way.

★COI-3P★COI-5P

animal barcode

Organelle genome

Besides the big genome in the nucleus, cells carry a small, circular loop of DNA inside the cell's energy factories — the mitochondria. It is inherited almost only from the mother and is a leftover from ancient bacteria that moved into the cell. The mitochondrial markers above (ND*, COX, CYTB…) are read from exactly this loop. Outer ring = one strand, inner ring = the other.

▸ Tap any coloured segment — or a gene chip — to see what it is

Mitochondrion

NC_033523 ↗ · 13 protein · 22 tRNA · 2 rRNA

NADH dehydrogenase subunit 1NADH dehydrogenase subunit 2cytochrome c oxidase subunit INADH dehydrogenase subunit 4Lcytochrome c oxidase subunit IIATP synthase F0 subunit 8ATP synthase F0 subunit 6cytochrome c oxidase subunit IIINADH dehydrogenase subunit 3NADH dehydrogenase subunit 4NADH dehydrogenase subunit 5NADH dehydrogenase subunit 6cytochrome b12S ribosomal RNA16S ribosomal RNA

◖ violet arc = the COI-5P barcode — the ~650 bp read used to ID this species

Pick a coloured segment on the ring — or a gene chip — to read what that gene does.

protein-codingrRNAtRNA

08Occurrence & distribution

Record type6 045 records

Wild obs. + sensor5 609

Museum / vouchered432

Other4

Range

Area of Occupancy AOO3 600 km²

Depth

0–200 m sunlit1 046

200–1000 m twilight0

1–4 km midnight0

>4 km abyssal0

median 12 m · max 111.6 m · 1 046 records with depth

Wildobservation + sensor

Human sightings and records, or camera-trap / sensor detections — someone (or a device) saw or captured the species in the wild.

Coordinate accuracy95% within 1 km

≤100 m 1 710≤1 km 179≤10 km 65>10 km 28

1 982 georeferenced · 3 627 without coordinates

Open the mapobservation + sensor5 609

Museum / Voucheredphysical evidence

Backed by a physical specimen — a herbarium sheet, sample or voucher held in a collection. “Vouchered” means supported by material evidence, not just an observation.

Coordinate accuracy51% within 1 km

≤100 m 8≤1 km 40≤10 km 21>10 km 26

95 georeferenced · 337 without coordinates

Open the institutions mapphysical evidence432

Wildobservation + sensor

Human sightings and records, or camera-trap / sensor detections — someone (or a device) saw or captured the species in the wild.

10Collections & institutions

Holding institutions9 of 21 geolocated

Institutions and collections holding physical, vouchered specimens of this species — click a row to fly to it on the map.

Institution	Specimens
Washington, US	56
Florida Museum of Natural History- Zoology, Paleontology & Paleobotanylocation not on record	31
Cambridge, US	26
Smithsonian Tropical Research Institutelocation not on record	25
Western Australian Museumlocation not on record	19
CASlocation not on record	16
Earth Sciences New Zealandlocation not on record	10
Los Angeles, US	8
Sydney, AU	6
Museum and Art Gallery of the Northern Territorylocation not on record	4
Stockholm, SE	4
University of Floridalocation not on record	2
Natick, US	2
Paris, FR	1
No Voucherlocation not on record	1
Museums Victorialocation not on record	1
Auckland, NZ	1
University museum (Fujukan)location not on record	1
Honolulu, US	1
National Museums of Kenyalocation not on record	1
National Museum of Natural Sciencelocation not on record	1

21 institutions · 217 of 432 vouchered records shown · 4 without an institution code

09Environmental DNA154 detections

Where the DNA of Echinothrix diadema was picked up in samples of water, soil or air — nobody saw the organism, only its DNA left behind. A trace is a clue that the species was near, not a confirmed sighting.

Signal

Detections DNA found154

Studies independent surveys1

Countries2

Signal confidence: weakweighed across independent studies, places & mapped detections

Where its DNA was found

0 of 154 detections have coordinates

Open the map2 countries0

How strong is each trace?

DNA read depthRead counts were not reported for this species — the map shows presence only, not how strong each trace was.

Modelled climatemodelled

−15°Ctemperature across detection sites+40°C

Temperature median25.8 °C 20.8–27.0

Seasonal swing summer↔winter1.20 °C

Max temp (day)27.2 °C 22.9–28.0

Min temp (night)24.8 °C 18.6–26.2

Precipitation86.1 mm/mo 8.60–204

Air humidity65.0 % 61.3–71.0

Moisture balance46.7 mm/mo

Vapour deficit1,206 Pa 708–1,370

Wind speed1.70 m/s

Cloud cover39.8 % 37.3–53.3

CHELSA 1981–2010, ~9 km grid, at location & month of 149 detection points · median with p10–p90 · reflects where sampling happened, not only the true niche

How to read this: each dot is one detection of this species' DNA in an environmental sample. The confidence meter weighs how many independent studies and places back up the signal — one detection in one study is a hint; many across several studies is solid. Records dated before 2008 (when eDNA methods began) are treated as likely mislabeled and left off the map.

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Echinothrix diadema

At a glance

Sources10 archives

Size & morphology1

Habitat & environment2

Uses & economy1

Other traits2

Compound class profile3 classes

Documented compounds3 total

At a glance

Record type6 045 records

Range

Depth

Wildobservation + sensor

Museum / Voucheredphysical evidence

Wildobservation + sensor

Holding institutions9 of 21 geolocated

Signal

Where its DNA was found

How strong is each trace?

Modelled climatemodelled

Record type6 045 records