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Table 1 The Acropora millepora repertoire of Bcl-2 family proteins

From: Functional conservation of the apoptotic machinery from coral to man: the diverse and complex Bcl-2 and caspase repertoires of Acropora millepora

Name

Transcript ID

Best blast hit (20 Feb 2015)

e-value

Probable orthologs in A. digitifera a

Probable orthologs in N. vectensis a

BH domains

Predicted C-term TM domain

Mitochondrial association

Activity (predicted)

AmBclWA

Cluster016692

ABX61040.1 HO088736 Bcl-like protein [Acropora millepora]

3e-134

ADIG 00181

NEMVE 100278

BH 1, 2, 3, 4

+

+

Anti-apoptotic

AmBclWB

Cluster004589

ABX61041.1 DY581529 "Bax-like protein" [Acropora millepora]

4e-154

ADIG 10817

NEMVE 128814

BH 1, 2, 3, 4

+

+

Anti-apoptotic

AmBclWC

Cluster008158

XP_002740789.2 Apoptosis regulator R1-like [Saccoglossus kowalevskii]

4e-29

ADIG 17522

NEMVE 244968

BH 1, 2, 3, 4

+

NT

(Anti-apoptotic)

AmBclWD

Cluster011480

EKC30554.1 Bcl-2-like protein 1 [Crassostrea gigas]

3e-26

ADIG 20703

NEMVE 208969

BH 1, 2, 3, 4

+

+

Anti-apoptotic

AmMcl1-like

Cluster025914 Cluster034949 Cluster024735

ABA61360.1 Apoptosis regulator abhp [Aiptasia pallida]

2e-25

-

NEMVE 246637

BH 1, 2, 3, 4

+

+

Anti-apoptotic

AmBax

Cluster006261

XP_001634856.1 EZ034459 Predicted protein [Nematostella vectensis]

3e-49

-

NEMVE 100129

BH 1, 2, 3

+

+

Pro-apoptotic strong

AmBak

Cluster009134 Cluster011792

XP_001641955.1 EZ037140 Predicted protein [Nematostella vectensis]

3e-86

ADIG 00172

NEMVE 196260

BH 1, 2, 3

+

NT

(Pro-apoptotic)

AmBokA

Cluster022467 Cluster041039

NP_001279536.1 Bcl-2-related ovarian killer [Callorhinchus milii]

1e-25

ADIG 09624

NEMVE 139439

BH 1, 2, 3, 4

-

+ also Golgi, ER

Anti-apoptotic weak

AmBokB

Cluster002778m

NP_001279536.1 Bcl-2-related ovarian killer [Callorhinchus milii]

6e-28

ADIG 24441

NEMVE 37807

BH 1, 2, 3, 4

-

NT

(Pro-apoptotic)

AmBokC

Cluster011056

XP_007576739.1 Bcl-2-related ovarian killer protein [Poecilia formosa]

2e-22

-

NEMVE 114394

BH 1, 2, 3

-

NT

(Pro-apoptotic)

AmBclRAMBO

Cluster015074

XP_001628866.1 Predicted protein [Nematostella vectensis]

8e-87

ADIG 05085

NEMVE 245329

BH 1, 2, 3

+

+

Pro-apoptotic

  1. asee Additional file 7 for accession numbers
  2. A combination of HMM and BlastP analyses was used on the A. millepora transcriptome and genome and led to the identification of 11 multi-domain members of the Bcl-2 family. Each of the previously identified Bcl-2 family members was clearly represented and the corresponding GenBank accession numbers are shown in italic in third column: HO088736 [23], DY581529 [21], EZ034459, and EZ037140 [18]. Probable orthologs in A. digitifera and N. vectensis are shown in column 5 and 6 respectively. Scanning for the presence of a C-terminal transmembrane domain was carried out using the TMPred (http://www.ch.embnet.org/software/TMPRED_form.html) and Phobius (http://phobius.binf.ku.dk/) prediction software. Mitochondrial association was inferred from expression in mammalian cells and subsequent subcellular localization (see Results section and Fig. 5). Activity data are based on assays for pro- and anti-apoptotic assays after expression in mammalian cells (see Results section and Figs. 3, 4); parentheses indicate predicted activity where this has not yet been tested empirically. In the case of AmBclRAMBO (which is predicted to be pro-apoptotic), results were equivocal; although pro-apoptotic activity was not directly tested, no major loss of cell viability was observed upon expression of full-length protein in mammalian cells (data not shown). Note that, although the properties of AmBak were not tested, the orthologous protein from another cnidarian (Hydra) has pro-apoptotic activity when expressed in mammalian cells [10]. Assignments (left hand column) are based on phylogenetic analysis of Bcl-2 proteins (Fig. 2). Abbreviations: ER, endoplasmic reticulum; NT, non-tested; TM, transmembrane
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BMC Genomics

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