Atlas of Genetics and Cytogenetics in Oncology and Haematology


Home   Genes   Leukemias   Solid Tumours   Cancer-Prone   Deep Insight   Case Reports   Journals  Portal   Teaching   

X Y 1 2 3 4 5 6 7 8 9 10 11 12 13 14 15 16 17 18 19 20 21 22 NA

URGENT NEED of MONEY :
GO to the page SAVE the Atlas and DONATE

COL16A1 (collagen, type XVI, alpha 1)

Identity

Other names447AA
HGNC (Hugo) COL16A1
LocusID (NCBI) 1307
Atlas_Id 44542
Location 1p35.2
Location_base_pair Starts at 32117848 and ends at 32169768 bp from pter ( according to hg19-Feb_2009)  [Mapping]
DNA/RNA

Description In 1992 the cDNA sequence of COL16A1 has been discovered in a screening for collagen-like sequences in cDNA banks of a human fibroblast cell line and human placenta tissue. Two laboratories published independently the human COL16A1 cDNA sequence (Pan et al., 1992; Yamaguchi et al., 1992). The coding sequence of authentic collagen type XVI comprises of 1604 amino acids including a 21 amino acid signal peptide, whereas the recombinant version of collagen type XVI contains 1597 amino acids (Kassner et al., 2004). The nucleotide sequences published by Pan et al. and Yamaguchi et al. were completed by Kassner et al. with respect to a missing codon for one amino acid (Kassner et al., 2004). Two predicted imperfections in the collagenous region could not be confirmed (unpublished data).
Transcription The cDNA of 5,4 kb comprises a 4809 bp coding sequence, framed by non-translated parts, including a 425 bp 3'-non-coding sequence which contains polyadenylating signals. COL16A1 has been localized to chromosome 1, 1p35-p34 (Pan et al., 1992). No splice variants have been described up to now. COL16A1 gene expression and transcription varies in various phases of cell growth in cultured skin fibroblasts. Gene expression was increased in stationary phases (G0/G1) of cell growth when cell proliferation was inhibited by serum deprivation or suspension arrest (Tajima et al., 2000). Transcription activity of the COL16A1 gene appears to be mechanosensitive. It is downregulated in HCS2/8 human chondrosarcoma cells after application of continuous hydrostatic pressure (Sironen et al., 2002). Recently, COL16A1 is described to act as a Smad-signalling specific target gene for BMP-4/BMP-6 in hepatocellular carcinoma (Maegdefrau and Bosserhoff, 2012).
Pseudogene No pseudogenes are described up to now.

Protein

 
  Figure 1. Collagen type XVI, domain and molecular structure. Collagen type XVI affinity-purified from culture medium of over expressing HEK 293 EBNA cells elutes in full-length chains and proteolytically processed fragments with following molecular weight as (213 kDa) (A), (182 kDa) (B) and (78 kDa) (C). One alpha 1 chain of intact collagen XVI consists of 10 collagenous domains (COL1-COL10) and 11 non-collagenous domains (NC1-NC11). Atomic Force Microscopy (AFM) of affinity-purified recombinant full-length collagen type XVI trimers allows measurement of molecular size (D). Rotary shadowed TEM image of purified recombinant full-length collagen type XVI trimers corroborates the AFM data (E). Length of intact collagen XVI comes to about 240 nm. COL= collagenous domains, NC= non-collagenous domains.
Description Collagen type XVI, by structural analogy a member of the FACIT - (fibril-associated collagens with interrupted triple helices) family of collagens, contains 10 collagenous (COL) domains interspersed with 11 non-collagenous (NC) regions (figure 1A-C). It is a homotrimeric molecule of about 210 kDa for each native α1 chain. 32 cysteine residues, which are almost all located in the non-collagenous domains at the junction to the preceding collagenous regions, contribute to a high thermal stability of the homotrimer in form of disulfide bonds (Pan et al., 1992; Yamaguchi et al., 1992). The prominent non-collagenous NC11 domain consists mainly of a 200-residue motif referred to as proline-arginine-rich protein (PARP) in several other collagen types or as tsp-1 in thrombospondin (figure 1A). It has been recombinantly expressed and used for generation of specific anti-NC11 antibodies (Tillet et al., 1995). 24% of the total number of proline residues and 48% of the total number of lysine residues were hydroxylated in recombinant collagen type XVI. Because only lysine and proline in the Y position of X-Y-Gly amino acid triplets and additionally some lysine residues in the Y position of X-Y-Ser and X-Y-Ala in collagens are subject to hydroxylation, the amino acid sequence of authentic human collagen type XVI would imply that 54% of the available prolines and a maximum of 92% of the available lysines could potentially be hydroxylated in recombinant collagen type XVI. Two of the three potential N-glycosylation sites reside in the N-terminal NC11 region and are glycosylated. The third has been assigned to the NC1 domain whereas here, no evidence has been found for the attachment of a glycosaminoglycan chain (Kassner et al., 2004).
Atomic force images of individual trimeric molecules exhibited a total length of 168 ± 3 nm including the N-terminal NC11 globular domains and the flexible threadlike tail comprising all collagenous regions plus the remaining non-collagenous domains. The height of the NC11 domain constituted 0,94 ± 0.06 nm and the radius at half height (r0.5h) was calculated as 9,48 ± 0,47 nm. The threadlike section of the remaining molecule C-terminal of the NC11 domain appeared to be a thin flat structure with a height between 0,5 and 0,7 nm. Notably, at a distance of 94.8 ± 4.6 nm from the NC11 terminus the molecular measurements increased either in height or diameter. The extension of this section contributed with 73,1 ± 1,6 nm to the total length of the protein (figure 1D). Rotary shadowing images of purified recombinant collagen type XVI exhibited extended rod-like molecules with a globular domain at one end, probably constituting the large N-terminal NC11 domain (figure 1E). The shape of the molecules revealed highly flexible regions, in some molecules even two or more kinks. The length of the molecules varied between 100-240 nm, with the majority being close to 150 nm.
The N-terminal half of human fibrillin-1/-2 binds dose-dependent to collagen type XVI at low salt concentrations of 50-100 mM NaCl, while interaction between collagen type XVI and the C-terminal half of fibrillin-1/-2 under these conditions were considerably lower. These results indicate that monomeric fibrillin-1/-2 can interact with collagen type XVI with low affinity. Both, fibrillin-1 and fibrillin-2 did not interact with the recombinant NC11 domain. Soluble recombinant fibronectin interacted strongly with collagen type XVI at 150 mM NaCl with half maximal binding at ~12 μg/ml (~55 nM fibronectin), indicating that fibronectin can bind to collagen XVI with high affinity (Kassner et al., 2004).
Collagen XVI co-localizes with α2 integrin at the dermal epidermal junction (DEJ) (figure 2 A-C) and with α1 integrin and around fat cells in subdermal layers (figure 2 D-F). Cells bearing the integrins α1β1 and α2β1 attach and spread on recombinant collagen type XVI. Collagen type XVI induces the recruitment of these integrins into focal adhesion plaques, a principal step in integrin signaling. In cell-free binding assays, collagen type XVI is more avidly bound by α1β1 integrin than by α2β1 integrin. Both integrins interact with collagen type XVI via the A-domain of their α-subunits. A tryptic collagen type XVI fragment comprising the collagenous domains 1-3 is recognized by α1β1 integrin. Electron microscopy of complexes of α1β1 integrin with this tryptic collagen XVI fragment or with full-length collagen type XVI revealed a unique α1β1 integrin binding site within collagen type XVI located in the COL 1-3 domains (Eble et al., 2006).
 
  Figure 2. Distribution of collagen XVI and integrins α1β1 and α2β1 in adult murine skin. Cryosections from murine skin were stained with purified anti-collagen XVI-antibodies (red fluorescence, A, B, D, E), and with mAb JA221 directed against the integrin α2 subunit (green fluorescence, A, C) and with mAb AGF-1 directed against the integrin α1 subunit (green fluorescence, D, F), Panels A and D show combined staining for collagen XVI and the integrin subunits. The same sections are shown either in panel B, E stained for collagen XVI together with DAPI, or in panel C, F stained for integrin subunits and DAPI. E= epidermis, F= fatty tissue, D= dermis, DEJ= dermal epidermal junction zone. All pictures were taken at 400 x magnification.
Expression Collagen type XVI is expressed in various cells and tissues. It is synthezised by dermal fibroblasts, smooth muscle cells (Grässel et al., 1996), dermal dendrocytes and dendritic cells in the skin (Akagi et al., 2002), articular and costal chondrocytes (Kassner et al., 2003), endometrial stromal cells (Tierney et al., 2003), basal dermal and oral keratinocytes (Grässel et al., 1999), bone marrow derived mesenchymal stem cells (Grässel et al., 2009), neurons from the dorsal root ganglion (Hubert et al., 2007), glioblastoma/astrocytoma cells (Senner et al., 2008) and intestinal myofibroblasts (Ratzinger et al., 2010). Collagen type XVI is further expressed in the limbal stem/progenitor niche which comprises clusters of cells in the basal epithelium. There it is associated with the corneal-limbal transition zone (Schlötzer-Schrehardt et al., 2007). During early mouse development, collagen type XVI occurs in many tissues and is co-distributed with the major fibrillar collagens. In particular, it is strongly expressed in differentiating chondrocytes and dermal fibroblasts, smooth muscle cells of the heart and dorsal root neural fibers, whereas in adult mice no signal appears in brain tissue. Additional expression is found in the cortical areas of the kidney and ovaries (Lai and Chu, 1996). In adults it is found in skin, cartilage, gastrointestinal tract and glioma tissues.
Localisation Extracellular matrix of tissues. For skin and cartilage tissue its suprastructure is known. It is associated to the fibrillin containing microfibrillar apparatus in the dermal-epidermal junction zone in skin and to collagen II containing D-banded cartilage fibrils in costal cartilage (Grässel et al., 1999; Kassner et al., 2003). It is depositred pericellular around fibroblasts and smooth muscle cells (Grässel et al., 1996) and in the territorial region of chondrocytes (Kassner et al., 2003).
Function Morphogenesis and assembly of distinct suprastructures in different tissues, i.e. microfibrillar apparatus in the dermis and fibrillar networks in various connective tissues (figure 3A, B). Presumably, it is an adaptor protein such as collagen type IX and connects and organizes large fibrillar networks and thus regulates integrity and stability of ECM (Eble et al., 2006; Grässel et al., 1999; Kassner et al., 2003). It is a substrate for adhesion and invasion of tumor cells, i.e. glioblastomas (Senner et al., 2008) and regeneration of connective tissues after neural injury (Hubert et al., 2007). In addition, it induces invasiveness of glioblastoma by altering the cell-matrix interaction (Bauer et al., 2011) and proliferative activity of oral squamous cell carcinoma by altering the cell cycle activity of the tumor cells (Ratzinger et al., 2011). Notably, COL16A1 is a Smad-signalling specific target gene for BMP-4/-6 in hepatocellular carcinoma where these BMPs are involved in the process of carcinogenesis (Maegdefrau and Bosserhoff, 2012).
 
  Figure 3. Ultrastructural localization of collagen XVI in fibrillar extracts from skin and cartilage by immunogold electron microscopy. Double labeling of collagen XVI (18 nm gold particles, light arrow) and fibrillin-1 (12 nm gold particles, dark arrow) demonstrate co-localization on "bead on the string" microfibrils with collagen XVI bound at one distinct bead of the microfibrils. The large D-periodically banded collagen I fibrils lack collagen XVI labeling (light arrowhead). Bar= 0,12 μm. (A). In cartilage a special subpopulation of thin D-periodically banded cartilage fibrils were labeled with collagen XVI (black arrow, 18 nm gold particles), other fibril populations lack collagen XVI association, Bar= 0,09 μm. (B).
Homology Based on conserved structural features with other FACIT-collagens, namely: collagens type IX, type XII, type XIV, type XIX, type XX, type XXI and type XXII. These structural features are: 1. The presence of two highly conserved cysteine residues separated by four amino acids at the NC1-junctions and the existence of two G-X-Y triplet imperfections within the COL2 domain. 2. A succession of triple-helical domains connected by short non-collagenous domains and the presence of a large N-terminal domain that always exhibits a TSPN subdomain next to the collagenous domain. 3. Besides from these common criteria, the FACITs display remarkable divergence in the size and composition of their N-terminal domains and in the number of their collagenous domains (Ricard-Blum and Ruggiero, 2005).

Mutations

Note There are no reports about mutations in the COL16A1 gene published as yet.
Germinal None yet described.
Somatic None yet described.

Implicated in

Entity Glioblastoma tumorigenesis
Note The progression of glioblastoma growth is characterized by diffuse invasion of tumor cells into the brain tissue. COL16A1 was upregulated on mRNA level in glioblastoma tissues compared to normal cortex (figure 4). Collagen type XVI protein was detected in glioblastoma tissue and was secreted by glioblastoma cell lines. A siRNA mediated knockdown of collagen type XVI resulted in decreased cell adhesion of glioblastoma cell lines whereas adhesion was augmented on culture surfaces coated with recombinant collagen type XVI. However, the migration potential of glioblastoma cells on collagen type XVI remained unaffected. Collagen type XVI appears to play a supportive role for tumour specific remodelling of extracellular matrix indicated through de novo expression by glioblastoma cells (Senner et al., 2008). Novel data suggest that in glioblastoma tissue collagen XVI may impair the cell-cell interaction in favour of enhancement of invasion. The modification of the β1-integrin activation pattern through collagen XVI might be a molecular mechanism to further augment the invasive phenotype of glioma cells (Bauer et al., 2011).
Disease Gliomas are the most frequent intrinsic brain tumors and comprise astrocytic gliomas (grades II, III, IV) including fibrillar astrocytoma (WHO grade II), anaplastic astrocytoma (WHO grade III), and glioblastoma (WHO grade IV). They are characterized by diffuse invasion of tumour cells into the brain parenchyma. The fatal outcome of this disease results from single-tumour cells that have already invaded distant brain regions at the time of diagnosis. Glioblastoma behave highly invasive which cause the high morbidity and mortality rates of these tumours (Claes et al., 2007; Louis et al., 2007).
Prognosis The 5-year survival rate of glioblastoma (WHO grade IV) is 3%.
 
Figure 4. Immunohistochemical staining of collagen type XVI and collagen type IV in brain sections. Immunofluorescence staining on cryo-sections for collagen XVI (red, white arrows) and collagen IV (green, light blue arrow heads) reveals an expression of collagen XVI around blood vessels, however not in the parenchyma of normal brain (A), whereas in glioblastoma (B) and pilocystic astrocytoma (C) collagen XVI is highly expressed throughout the tumour tissue.
  
Entity Oral squamous cell carcinoma tumorigenesis
Note There is still a lack of reliable prognostic tools for oral squamous cell carcinoma (OSCC). Initial, early stages of the tumor are hard to identify. COL16A1 expression is upregulated in dysplastic stages of OSCC compared to normal oral epithelium where it is restricted to the dermal-epidermal junction (figure 5). Moreover, in protein lysates from OSCC tissues more collagen type XVI was detected by immunoblotting compared to lysates from normal oral tissue. Overexpression of collagen type XVI in an OSCC cell line (PCI13) led to an upregulation of kindlin-1 and an increased interaction of kindlin-1 with beta1-integrin. Beta1-integrin activity was enhanced in collagen type XVI overexpressing OSCC cells and an earlier S-phase and G2/M-phase entry six hours after synchronisation was observed compared to control cells leading to a markedly higher proliferation activity. Blocking beta1-integrin induced a decrease of the proliferative activity of the collagen XVI overexpressing cells (Ratzinger et al., 2011). In summary, collagen type XVI overexpression leads to early S-phase entry in OSCC cells due to enhanced interaction of kindlin-1/beta1-integrin and subsequent beta1-integrin activation.
Disease Head and neck cancer is the sixth leading cancer by incidence worldwide (Rousseau and Badoual, 2011) and affects more than 500000 people each year. Oral squamous cell carcinoma represents 95% of all head and neck cancer forms and within the past ten years its incidence has increased more than 50%. Despite multimodal therapies including excision of malignant tissue and a combination of radio- and chemotherapy the 5-year survival rate is still only 53%. A high rate of patients remains with a poor response to therapy and high frequencies of relapses (Bettendorf et al., 2004). Moreover, frequent lymph node metastasis involving migration and invasion of aberrant cells from the primary neoplasm to distant sites results in poor prognosis (Bray et al., 2002; Parkin et al., 2005).
Prognosis The 5-year survival rate of head and neck squamous cell carcinoma is 40-50%.
 
Figure 5. Immunohistochemical staining of collagen type XVI in dysplastic areas of tissue from oral squamous cell carcinoma. Immunofluorescence staining on paraffin-sections for collagen type XVI (red) reveals a strong and diffuse expression of collagen type XVI throughout the oral epithelium in contrast to normal oral epithelium where collagen type XVI location is restricted to the dermal-epidermal junction. BM= basal membrane, EP= oral epithelium, SL= surface layer, SM= submucosa.
  
Entity Crohn's disease
Note Collagen type XVI is produced by myofibroblasts in the normal intestine and its synthesis is increased in the inflamed bowel wall (figure 6). Collagen type XVI promotes cell spreading, formation and maturation of focal adhesion contacts. Myofibroblasts develop increased numbers of focal adhesion contacts on collagen type XVI with increased recruitment of α1 integrin into the focal adhesions at the tip of the cells. Focal adhesions on myofibroblasts from inflamed colon tissue also display an increase in length on collagen type XVI compared to collagen type I. As a result, larger forces can be transmitted which then promote and augment contraction of the ECM and ultimately result in elevated stricture formation. Increased cell spreading on collagen type XVI presumably adds to the maintenance of cells in the inflamed intestinal regions and thus promotes fibrotic responses of the tissue and prolongs further disturbances of the delicate homeostasis between cells and surrounding ECM (Ratzinger et al., 2010).
Disease Crohn's disease is characterized by chronic inflammation of the gastrointestinal tract, accompanied by other systemic abnormalities. Inflammatory lesions progress to intestinal fibrotic processes. A pathologically overshooting healing response to inflammation-induced disintegration of mucosal tissue leads to excessive tissue repair.
An altered cyto-architecture of the bowel wall with disruption of the muscularis mucosa, thickening of the muscularis propria, and deposition of collagens contributes to the inflammation process (Burke et al., 2007). Fibrillar and non-fibrillar collagens are up-regulated in CD (type I, II, IV, V, VI) (Graham et al., 1988; Matthes et al., 1992; Pucilowska et al., 2000; Stallmach et al., 1992). Mesenchymal cells like fibroblasts, myofibroblasts and smooth-muscle cells are the main producers of extracellular matrix components and play an important part in tissue growth and development (Powell et al., 1999; Simon-Assmann et al., 1995). Myofibroblasts are considered as central player in tissue repair contributing to fibrosis, stricture formation and stenosis by reconstituting a collagen-rich extracellular matrix (ECM) and promoting wound closure by contraction (Pucilowska et al., 2000; Tomasek et al., 2002). Myofibroblasts motility, their ability to contract wounds and the production of ECM is altered in chronic inflammation. Normal wound healing would terminate the contractile and synthesizing activity of myofibroblasts by apoptotic reduction of the cell number (Desmoulière et al., 1995).
 
Figure 6. Morphological distribution of collagen type XVI in healthy and diseased intestine. Morphological distribution of collagen XVI (green fluorescence) and a-smooth muscle actin (red fluorescence) is demonstrated for the bowel wall of healthy tissue (A-D) and CD tissue (E-H). Arrow heads indicate positive staining for collagen XVI. A negative control is displayed as inlet in D. c: crypts, m: muscle layer, s: submucosa, bv: blood vessel, e: erythrocytes, ep: epithelial cells, lp: lamina propria.
  
Entity Neuronal development and regeneration
Note In the nervous system, low collagen type XVI expression was reported in the brain, however, in spinal root fibres high gene expression levels were detected during development (Lai et al., 1996). A SAGE banks analysis showed an induction of Col16a1 gene expression during development and after nerve injury in dorsal root ganglia (DRG) of mice which contain the cell bodies of neurons (Méchaly et al., 2006). Their axons transmit sensory information from the periphery to the central nervous system. During development and regeneration, neurites require extracellular matrix for growth and guidance (Hari et al., 2004), however, the composition of the ECM is yet unknown. In cell culture, satellite cells express collagen type XVI indicating secretion and deposition by neuronal and glia cells. Collagen type XVI participates in final steps of DRG structural and functional maturation. So far, collagen type XVI is the only FACIT collagen, whose expression is regulated by nerve injury, taking presumably part in remodelling events like inflammation, cell proliferation, and neuronal death (Hubert et al., 2007).
  
Entity Fibrotic skin diseases
Note In skin, COL16A1 transcripts were detected in cultured dermal fibroblasts and keratinocytes (Pan et al., 1992). Gene expression in fibroblasts varied according to the horizontal layers in skin. Fibroblasts explanted from the upper dermis displayed higher COL16A1 gene expression than those from the middle and lower dermis. In cultured skin fibroblasts an increase of COL16A1 mRNA level was observed in stationary phases of the cell cycle (non-adherent and confluent phases) (Tajima et al., 2000). In localized scleroderma and in systemic scleroderma COL16A1 gene expression was upregulated 2,3 fold and 3,6 fold, respectively, compared with keloid and normal controls (Akagi et al., 1999).
Disease Systemic and localized scleroderma are characterized by systemic and localized deposition of highly overproduced collagens in the skin. This collagen accumulation is a result of overproduction of collagens type I, II, and VI (Graves et al., 1983; Krieg et al., 1985).
  

External links

Nomenclature
HGNC (Hugo)COL16A1   2193
Cards
AtlasCOL16A1ID44542ch1p35
Entrez_Gene (NCBI)COL16A1  1307  collagen, type XVI, alpha 1
GeneCards (Weizmann)COL16A1
Ensembl hg19 (Hinxton)ENSG00000084636 [Gene_View]  chr1:32117848-32169768 [Contig_View]  COL16A1 [Vega]
Ensembl hg38 (Hinxton)ENSG00000084636 [Gene_View]  chr1:32117848-32169768 [Contig_View]  COL16A1 [Vega]
ICGC DataPortalENSG00000084636
TCGA cBioPortalCOL16A1
AceView (NCBI)COL16A1
Genatlas (Paris)COL16A1
WikiGenes1307
SOURCE (Princeton)COL16A1
Genomic and cartography
GoldenPath hg19 (UCSC)COL16A1  -     chr1:32117848-32169768 -  1p35-p34   [Description]    (hg19-Feb_2009)
GoldenPath hg38 (UCSC)COL16A1  -     1p35-p34   [Description]    (hg38-Dec_2013)
EnsemblCOL16A1 - 1p35-p34 [CytoView hg19]  COL16A1 - 1p35-p34 [CytoView hg38]
Mapping of homologs : NCBICOL16A1 [Mapview hg19]  COL16A1 [Mapview hg38]
OMIM120326   
Gene and transcription
Genbank (Entrez)AB209571 AF370368 BC064839 BC167814 M92642
RefSeq transcript (Entrez)NM_001856
RefSeq genomic (Entrez)NC_000001 NC_018912 NT_032977 NW_004929290
Consensus coding sequences : CCDS (NCBI)COL16A1
Cluster EST : UnigeneHs.368921 [ NCBI ]
CGAP (NCI)Hs.368921
Alternative Splicing : Fast-db (Paris)GSHG0001927
Alternative Splicing GalleryENSG00000084636
Gene ExpressionCOL16A1 [ NCBI-GEO ]     COL16A1 [ SEEK ]   COL16A1 [ MEM ]
SOURCE (Princeton)Expression in : [Normal Tissue Atlas]  [carcinoma Classsification]  [NCI60]
Protein : pattern, domain, 3D structure
UniProt/SwissProtQ07092 (Uniprot)
NextProtQ07092  [Medical]
With graphics : InterProQ07092
Splice isoforms : SwissVarQ07092 (Swissvar)
Domains : Interpro (EBI)Collagen    ConA-like_dom    Laminin_G   
Related proteins : CluSTrQ07092
Domain families : Pfam (Sanger)Collagen (PF01391)   
Domain families : Pfam (NCBI)pfam01391   
Domain families : Smart (EMBL)TSPN (SM00210)  
DMDM Disease mutations1307
Blocks (Seattle)Q07092
Human Protein AtlasENSG00000084636
Peptide AtlasQ07092
HPRD00381
IPIIPI00400935   IPI00641471   IPI00935394   IPI00854728   IPI00853040   IPI00853113   IPI00852649   
Protein Interaction databases
DIP (DOE-UCLA)Q07092
IntAct (EBI)Q07092
FunCoupENSG00000084636
BioGRIDCOL16A1
IntegromeDBCOL16A1
STRING (EMBL)COL16A1
Ontologies - Pathways
QuickGOQ07092
Ontology : AmiGOintegrin binding  protein binding  extracellular region  proteinaceous extracellular matrix  collagen type XVI trimer  endoplasmic reticulum lumen  cell adhesion  integrin-mediated signaling pathway  female pregnancy  extracellular matrix disassembly  extracellular matrix organization  collagen catabolic process  integrin activation  cell adhesion mediated by integrin  positive regulation of focal adhesion assembly  cellular response to amino acid stimulus  
Ontology : EGO-EBIintegrin binding  protein binding  extracellular region  proteinaceous extracellular matrix  collagen type XVI trimer  endoplasmic reticulum lumen  cell adhesion  integrin-mediated signaling pathway  female pregnancy  extracellular matrix disassembly  extracellular matrix organization  collagen catabolic process  integrin activation  cell adhesion mediated by integrin  positive regulation of focal adhesion assembly  cellular response to amino acid stimulus  
REACTOMEQ07092 [protein]
REACTOME PathwaysREACT_118779 Extracellular matrix organization [pathway]
Protein Interaction DatabaseCOL16A1
DoCM (Curated mutations)COL16A1
Wikipedia pathwaysCOL16A1
Gene fusion - Rearrangements
Gene fusion: TCGA
Polymorphisms : SNP, variants
NCBI Variation ViewerCOL16A1 [hg38]
dbSNP Single Nucleotide Polymorphism (NCBI)COL16A1
dbVarCOL16A1
ClinVarCOL16A1
1000_GenomesCOL16A1 
Exome Variant ServerCOL16A1
SNP (GeneSNP Utah)COL16A1
SNP : HGBaseCOL16A1
Genetic variants : HAPMAPCOL16A1
Genomic Variants (DGV)COL16A1 [DGVbeta]
Mutations
ICGC Data PortalCOL16A1 
TCGA Data PortalCOL16A1 
Tumor PortalCOL16A1
Somatic Mutations in Cancer : COSMICCOL16A1 
LOVD (Leiden Open Variation Database)Whole genome datasets
LOVD (Leiden Open Variation Database)LOVD - Leiden Open Variation Database
LOVD (Leiden Open Variation Database)LOVD 3.0 shared installation
Impact of mutations[PolyPhen2] [SIFT Human Coding SNP] [Buck Institute : MutDB] [Mutation Assessor] 
Diseases
DECIPHER (Syndromes)1:32117848-32169768
CONAN: Copy Number AnalysisCOL16A1 
Mutations and Diseases : HGMDCOL16A1
OMIM120326   
MedgenCOL16A1
NextProtQ07092 [Medical]
GENETestsCOL16A1
Disease Genetic AssociationCOL16A1
Huge Navigator COL16A1 [HugePedia]  COL16A1 [HugeCancerGEM]
snp3D : Map Gene to Disease1307
DGIdb (Drug Gene Interaction db)COL16A1
General knowledge
Homologs : HomoloGeneCOL16A1
Homology/Alignments : Family Browser (UCSC)COL16A1
Phylogenetic Trees/Animal Genes : TreeFamCOL16A1
Chemical/Protein Interactions : CTD1307
Chemical/Pharm GKB GenePA26709
Clinical trialCOL16A1
Cancer Resource (Charite)ENSG00000084636
Other databases
Probes
Litterature
PubMed19 Pubmed reference(s) in Entrez
CoreMineCOL16A1
GoPubMedCOL16A1
iHOPCOL16A1

Bibliography

Increased procollagen mRNA levels in scleroderma skin fibroblasts.
Graves PN, Weiss IK, Perlish JS, Fleischmajer R.
J Invest Dermatol. 1983 Feb;80(2):130-2.
PMID 6822742
 
Collagen synthesis by scleroderma fibroblasts.
Krieg T, Perlish JS, Mauch C, Fleischmajer R.
Ann N Y Acad Sci. 1985;460:375-86.
PMID 3868957
 
Collagen content and types in the intestinal strictures of Crohn's disease.
Graham MF, Diegelmann RF, Elson CO, Lindblad WJ, Gotschalk N, Gay S, Gay R.
Gastroenterology. 1988 Feb;94(2):257-65.
PMID 3335305
 
Cellular localization of procollagen gene transcripts in inflammatory bowel diseases.
Matthes H, Herbst H, Schuppan D, Stallmach A, Milani S, Stein H, Riecken EO.
Gastroenterology. 1992 Feb;102(2):431-42.
PMID 1732114
 
Cloning and chromosomal location of human alpha 1(XVI) collagen.
Pan TC, Zhang RZ, Mattei MG, Timpl R, Chu ML.
Proc Natl Acad Sci U S A. 1992 Jul 15;89(14):6565-9.
PMID 1631157
 
Increased collagen type III synthesis by fibroblasts isolated from strictures of patients with Crohn's disease.
Stallmach A, Schuppan D, Riese HH, Matthes H, Riecken EO.
Gastroenterology. 1992 Jun;102(6):1920-9.
PMID 1587410
 
Molecular cloning and partial characterization of a novel collagen chain, alpha 1(XVI), consisting of repetitive collagenous domains and cysteine-containing non-collagenous segments.
Yamaguchi N, Kimura S, McBride OW, Hori H, Yamada Y, Kanamori T, Yamakoshi H, Nagai Y.
J Biochem. 1992 Dec;112(6):856-63.
PMID 1284248
 
Apoptosis mediates the decrease in cellularity during the transition between granulation tissue and scar.
Desmouliere A, Redard M, Darby I, Gabbiani G.
Am J Pathol. 1995 Jan;146(1):56-66.
PMID 7856739
 
Extracellular matrix components in intestinal development.
Simon-Assmann P, Kedinger M, De Arcangelis A, Rousseau V, Simo P.
Experientia. 1995 Sep 29;51(9-10):883-900. (REVIEW)
PMID 7556570
 
Recombinant analysis of human alpha 1 (XVI) collagen. Evidence for processing of the N-terminal globular domain.
Tillet E, Mann K, Nischt R, Pan TC, Chu ML, Timpl R.
Eur J Biochem. 1995 Feb 15;228(1):160-8.
PMID 7882999
 
Biosynthesis and processing of type XVI collagen in human fibroblasts and smooth muscle cells.
Grassel S, Timpl R, Tan EM, Chu ML.
Eur J Biochem. 1996 Dec 15;242(3):576-84.
PMID 9022684
 
Tissue distribution and developmental expression of type XVI collagen in the mouse.
Lai CH, Chu ML.
Tissue Cell. 1996 Apr;28(2):155-64.
PMID 8650669
 
Expression of type XVI collagen in human skin fibroblasts: enhanced expression in fibrotic skin diseases.
Akagi A, Tajima S, Ishibashi A, Yamaguchi N, Nagai Y.
J Invest Dermatol. 1999 Aug;113(2):246-50.
PMID 10469311
 
Collagen XVI is expressed by human dermal fibroblasts and keratinocytes and is associated with the microfibrillar apparatus in the upper papillary dermis.
Grassel S, Unsold C, Schacke H, Bruckner-Tuderman L, Bruckner P.
Matrix Biol. 1999 Jun;18(3):309-17.
PMID 10429949
 
Myofibroblasts. II. Intestinal subepithelial myofibroblasts.
Powell DW, Mifflin RC, Valentich JD, Crowe SE, Saada JI, West AB.
Am J Physiol. 1999 Aug;277(2 Pt 1):C183-201. (REVIEW)
PMID 10444394
 
Fibrogenesis. IV. Fibrosis and inflammatory bowel disease: cellular mediators and animal models.
Pucilowska JB, Williams KL, Lund PK.
Am J Physiol Gastrointest Liver Physiol. 2000 Oct;279(4):G653-9. (REVIEW)
PMID 11005750
 
Expression of type XVI collagen in cultured skin fibroblasts is related to cell growth arrest.
Tajima S, Akagi A, Tanaka N, Ishibashi A, Kawada A, Yamaguchi N.
FEBS Lett. 2000 Mar 3;469(1):1-4.
PMID 10708744
 
Type XVI collagen is expressed in factor XIIIa+ monocyte-derived dermal dendrocytes and constitutes a potential substrate for factor XIIIa.
Akagi A, Tajima S, Ishibashi A, Matsubara Y, Takehana M, Kobayashi S, Yamaguchi N.
J Invest Dermatol. 2002 Feb;118(2):267-74.
PMID 11841543
 
Estimates of cancer incidence and mortality in Europe in 1995.
Bray F, Sankila R, Ferlay J, Parkin DM.
Eur J Cancer. 2002 Jan;38(1):99-166.
PMID 11750846
 
High pressure effects on cellular expression profile and mRNA stability. A cDNA array analysis.
Sironen RK, Karjalainen HM, Torronen K, Elo MA, Kaarniranta K, Takigawa M, Helminen HJ, Lammi MJ.
Biorheology. 2002;39(1-2):111-7.
PMID 12082273
 
Myofibroblasts and mechano-regulation of connective tissue remodelling.
Tomasek JJ, Gabbiani G, Hinz B, Chaponnier C, Brown RA.
Nat Rev Mol Cell Biol. 2002 May;3(5):349-63. (REVIEW)
PMID 11988769
 
Discrete integration of collagen XVI into tissue-specific collagen fibrils or beaded microfibrils.
Kassner A, Hansen U, Miosge N, Reinhardt DP, Aigner T, Bruckner-Tuderman L, Bruckner P, Grassel S.
Matrix Biol. 2003 Apr;22(2):131-43.
PMID 12782140
 
Activation of the protein kinase A pathway in human endometrial stromal cells reveals sequential categorical gene regulation.
Tierney EP, Tulac S, Huang ST, Giudice LC.
Physiol Genomics. 2003 Dec 16;16(1):47-66.
PMID 14532334
 
Prognostic and predictive factors in oral squamous cell cancer: important tools for planning individual therapy?
Bettendorf O, Piffko J, Bankfalvi A.
Oral Oncol. 2004 Feb;40(2):110-9. (REVIEW)
PMID 14693233
 
Neurotrophins and extracellular matrix molecules modulate sensory axon outgrowth.
Hari A, Djohar B, Skutella T, Montazeri S.
Int J Dev Neurosci. 2004 Apr;22(2):113-7.
PMID 15036386
 
Molecular structure and interaction of recombinant human type XVI collagen.
Kassner A, Tiedemann K, Notbohm H, Ludwig T, Morgelin M, Reinhardt DP, Chu ML, Bruckner P, Grassel S.
J Mol Biol. 2004 Jun 11;339(4):835-53.
PMID 15165854
 
Global cancer statistics, 2002.
Parkin DM, Bray F, Ferlay J, Pisani P.
CA Cancer J Clin. 2005 Mar-Apr;55(2):74-108.
PMID 15761078
 
The collagen superfamily: from the extracellular matrix to the cell membrane.
Ricard-Blum S, Ruggiero F.
Pathol Biol (Paris). 2005 Sep;53(7):430-42. Epub 2005 Jan 20. (REVIEW)
PMID 16085121
 
Collagen XVI harbors an integrin alpha1 beta1 recognition site in its C-terminal domains.
Eble JA, Kassner A, Niland S, Morgelin M, Grifka J, Grassel S.
J Biol Chem. 2006 Sep 1;281(35):25745-56. Epub 2006 Jun 5.
PMID 16754661
 
Gene profiling during development and after a peripheral nerve traumatism reveals genes specifically induced by injury in dorsal root ganglia.
Mechaly I, Bourane S, Piquemal D, Al-Jumaily M, Venteo S, Puech S, Scamps F, Valmier J, Carroll P.
Mol Cell Neurosci. 2006 Jul;32(3):217-29.
PMID 16769221
 
Fibrogenesis in Crohn's disease.
Burke JP, Mulsow JJ, O'Keane C, Docherty NG, Watson RW, O'Connell PR.
Am J Gastroenterol. 2007 Feb;102(2):439-48. Epub 2006 Dec 11. (REVIEW)
PMID 17156147
 
Diffuse glioma growth: a guerilla war.
Claes A, Idema AJ, Wesseling P.
Acta Neuropathol. 2007 Nov;114(5):443-58. Epub 2007 Sep 6. (REVIEW)
PMID 17805551
 
Collagen XVI is a neural component of the developing and regenerating dorsal root ganglia extracellular matrix.
Hubert T, Grimal S, Ratzinger S, Mechaly I, Grassel S, Fichard-Carroll A.
Matrix Biol. 2007 Apr;26(3):206-10. Epub 2006 Nov 6.
PMID 17169544
 
The 2007 WHO classification of tumours of the central nervous system.
Louis DN, Ohgaki H, Wiestler OD, Cavenee WK, Burger PC, Jouvet A, Scheithauer BW, Kleihues P.
Acta Neuropathol. 2007 Aug;114(2):97-109. Epub 2007 Jul 6. (REVIEW)
PMID 17618441
 
Characterization of extracellular matrix components in the limbal epithelial stem cell compartment.
Schlotzer-Schrehardt U, Dietrich T, Saito K, Sorokin L, Sasaki T, Paulsson M, Kruse FE.
Exp Eye Res. 2007 Dec;85(6):845-60. Epub 2007 Sep 2.
PMID 17927980
 
Collagen XVI expression is upregulated in glioblastomas and promotes tumor cell adhesion.
Senner V, Ratzinger S, Mertsch S, Grassel S, Paulus W.
FEBS Lett. 2008 Oct 15;582(23-24):3293-300. Epub 2008 Sep 17.
PMID 18804107
 
Gene and protein expression profile of naive and osteo-chondrogenically differentiated rat bone marrow-derived mesenchymal progenitor cells.
Grassel S, Ahmed N, Gottl C, Grifka J.
Int J Mol Med. 2009 Jun;23(6):745-55.
PMID 19424600
 
Collagen XVI induces formation of focal contacts on intestinal myofibroblasts isolated from the normal and inflamed intestinal tract.
Ratzinger S, Eble JA, Pasoldt A, Opolka A, Rogler G, Grifka J, Grassel S.
Matrix Biol. 2010 Apr;29(3):177-93. Epub 2009 Nov 18.
PMID 19931388
 
Inhibition of collagen XVI expression reduces glioma cell invasiveness.
Bauer R, Ratzinger S, Wales L, Bosserhoff A, Senner V, Grifka J, Grassel S.
Cell Physiol Biochem. 2011;27(3-4):217-26. Epub 2011 Apr 1.
PMID 21471710
 
Induction of type XVI collagen expression facilitates proliferation of oral cancer cells.
Ratzinger S, Grassel S, Dowejko A, Reichert TE, Bauer RJ.
Matrix Biol. 2011 Mar;30(2):118-25. Epub 2011 Jan 18.
PMID 21251976
 
Head and Neck: Squamous cell carcinoma: an overview.
Rousseau A, Badoual C.
Atlas Genet Cytogenet Oncol Haematol. September 2011 URL : http://AtlasGeneticsOncology.org/Tumors/HeadNeckSCCID5090.html
 
BMP activated Smad signaling strongly promotes migration and invasion of hepatocellular carcinoma cells.
Maegdefrau U, Bosserhoff AK.
Exp Mol Pathol. 2012 Feb;92(1):74-81. Epub 2011 Oct 15.
PMID 22024355
 
REVIEW articlesautomatic search in PubMed
Last year publicationsautomatic search in PubMed

Search in all EBI   NCBI

Contributor(s)

Written09-2009Susanne Grässel, Sabine Ratzinger
Orthopaedic Surgery, University of Regensburg, Abt Experimentelle Orthopadie, ZMB im BioPark 1, Josef-Engert-Strasse 9, D-93053 Regensburg, Germany (SG, SR); Centre for Medical Biotechnology, BioPark 1, Regensburg, Germany (SG, SR)
Updated04-2012Susanne Grässel, Richard J Bauer
Orthopaedic Surgery, University of Regensburg, Germany (SG); Centre for Medical Biotechnology, BioPark 1, Regensburg, Germany (SG, RJB); Oral and Maxillofacial Surgery, University Hospital Regensburg, Germany (RJB)

Citation

This paper should be referenced as such :
GrÌ_ssel, S ; Bauer, RJ
COL16A1 (collagen, type XVI, alpha 1)
Atlas Genet Cytogenet Oncol Haematol. 2012;16(9):629-638.
Free journal version : [ pdf ]   [ DOI ]
On line version : http://AtlasGeneticsOncology.org/Genes/COL16A1ID44542ch1p35.html
History of this paper:
GrÌ_ssel, S ; Ratzinger, S. COL16A1 (collagen, type XVI, alpha 1). Atlas Genet Cytogenet Oncol Haematol. 2010;14(7):679-687.
http://documents.irevues.inist.fr/bitstream/handle/2042/44804/09-2009-COL16A1ID44542ch1p35.pdf
GrÌ_ssel, S ; Bauer, RJ. COL16A1 (collagen, type XVI, alpha 1). Atlas Genet Cytogenet Oncol Haematol. 2012;16(9):629-638.
http://documents.irevues.inist.fr/bitstream/handle/2042/47532/04-2012-COL16A1ID44542ch1p35.pdf

© Atlas of Genetics and Cytogenetics in Oncology and Haematology
indexed on : Tue Apr 28 18:40:48 CEST 2015

Home   Genes   Leukemias   Solid Tumours   Cancer-Prone   Deep Insight   Case Reports   Journals  Portal   Teaching   

For comments and suggestions or contributions, please contact us

jlhuret@AtlasGeneticsOncology.org.