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4. Contribution by the methanogenic endosymbionts of anaerobic ciliates to methane production in Dutch freshwater sediments

Author

Hoek, A.H.A.M. van, Alen, T.A. van, Vogels, G.D., and Hackstein, J.H.P.

Subjects
animal structures, origins, organelle, fungi, RIKILT - Business Unit Veiligheid & Gezondheid, emissions, nyctotherus-ovalis, cockroach, mitochondria, protozoa, hydrogenosomes, Ecological Microbiology, Evolutionary Microbiology, RIKILT - Business Unit Safety & Health, Research programm of Radboud Institute for Biological and Environmental Sciences, bacteria, GeneralLiterature_REFERENCE(e.g.,dictionaries,encyclopedias,glossaries), symbiotic methanogens
Abstract

Biogenic methane contributes substantially to the atmospheric methane concentration and thus to global warming. This trace gas is predominantly produced by strictly anaerobic methanogenic archaea, which thrive in the most divergent ecological niches, e. g. paddy fields, sediments, landfills, and the digestive tract of various animals. Methanogenic archaea also live as endosymbionts in the cytoplasm of anaerobic protozoa. In marine sediments these endosymbionts can contribute up to 90% to the overall rate of methanogenesis, whereas their role of in freshwater sediments is largely unknown. Here we describe the results of a one year's survey of the methanogenesis by endosymbiotic methanogens in four different Dutch freshwater sediments. The abundance of anaerobic protozoa, in particular ciliates, the methane production rates by the ecosystem and by the protists, and a number of abiotic parameters were measured. A novel method (heatshock for 5 min) for estimating the contribution by endosymbiotic methanogens was established. Our results reveal large fluctuations of ciliate abundance throughout the year, but on average, only minor contributions by methanogenic endosymbionts to the total methanogenesis in these environments

Published
2006

5. The anaerobic chytridiomycete fungus Piromyces sp. E2 produces ethanol via pyruvate:formate lyase and an alcohol dehydrogenase E

Author

Boxma, B., Voncken, F.L.M., Jannink, S.A., Alen, T.A. van, Akhmanova, A.S., Weelden, S.W. van, Hellemond, J.J. van, Ricard, G.N.S., Huynen, M.A., Tielens, A.G.G.M., and Hackstein, J.H.P.

Subjects
Bioinformatics, Ecological Microbiology, Evolutionary Microbiology, Research programm of Radboud Institute for Biological and Environmental Sciences, Cellular energy metabolism [UMCN 5.3]
Abstract

Contains fulltext : 57997_p31.pdf (Publisher’s version ) (Closed access) Anaerobic chytridiomycete fungi possess hydrogenosomes, which generate hydrogen and ATP, but also acetate and formate as end-products of a prokaryotic-type mixed-acid fermentation. Notably, the anaerobic chytrids Piromyces and Neocallimastix use pyruvate:formate lyase (PFL) for the catabolism of pyruvate, which is in marked contrast to the hydrogenosomal metabolism of the anaerobic parabasalian flagellates Trichomonas vaginalis and Tritrichomonas foetus, because these organisms decarboxylate pyruvate with the aid of pyruvate:ferredoxin oxidoreductase (PFO). Here, we show that the chytrids Piromyces sp. E2 and Neocallimastix sp. L2 also possess an alcohol dehydrogenase E (ADHE) that makes them unique among hydrogenosome-bearing anaerobes. We demonstrate that Piromyces sp. E2 routes the final steps of its carbohydrate catabolism via PFL and ADHE: in axenic culture under standard conditions and in the presence of 0.3% fructose, 35% of the carbohydrates were degraded in the cytosol to the end-products ethanol, formate, lactate and succinate, whereas 65% were degraded via the hydrogenosomes to acetate and formate. These observations require a refinement of the previously published metabolic schemes. In particular, the importance of the hydrogenase in this type of hydrogenosome has to be revisited.

Published
2004

6. Pyruvate: ferredoxin oxidoreductase (PFO) genes from the rumen: protozoal or bacterial origins?

Author

Severing, E., Ederveen, A., Staay, G.W.M. van der, Moon-van der Staay, S.Y., Graaf, R.M. de, Alen, T.A. van, McEwan, N.R., Newbold, J.C., Jouany, J.P., Michalowski, T., Pristas, P., Fried, J., Ricard, G.N.S., Huynen, M.A., and Hackstein, J.H.P.

Subjects
Bioinformatics, Ecological Microbiology, Evolutionary Microbiology, Research programm of Radboud Institute for Biological and Environmental Sciences
Abstract

Item does not contain fulltext 4th Symposium on Gut Microbiology, 21 juni 2004

Published
2004

7. Gene-sized macronuclear chromosomes in the anaerobic ciliate Nyctotherus ovalis

Author

Hoek, A.H.A.M. van, Alen, T.A. van, Staay, G.W.M. van der, Moon-van der Staay, S.Y., Boxma, B., and Hackstein, J.H.P.

Subjects
nutrition, Bioinformatics, Reproduction, Ecological Microbiology, Evolutionary Microbiology, Reproduction, nutrition, development, Research programm of Radboud Institute for Biological and Environmental Sciences, development
Abstract

Item does not contain fulltext 4th Symposium on Gut Microbiology, 21 juni 2004

Published
2004

8. Zebra mussels (Dreissena polymorpha) in Ireland, AFLP-fingerprinting and boat traffic both indicate an origin from Britain

Author

Pollux, B.A.J., Minchin, D., Velde, G. van der, Alen, T.A. van, Moon-van der Staay, S.Y., Hackstein, J.H.P., and Plant Animal Interactions - Aquatic Ecology

Subjects
animal structures, AFLP, Animal Ecology and Physiology, Ecological Microbiology, fungi, Dreissena polymorpha, Invasions, Trade, Aquatic Ecology, Ireland
Abstract

1. The zebra mussel (Dreissena polymorpha) is an aquatic nuisance species that invaded Ireland around 1994. We studied the invasion of the zebra mussel combining field surveys and genetic studies, to determine the origin of invasion and the vector of introduction. 2. Field surveys showed that live zebra mussels, attached to the hulls of pleasure boats, were transported from Britain to Ireland. These boats were lifted from British waters onto trailers, transported to Ireland by ferry and lifted into Irish waters within a day. Length-frequency distributions of dead and living mussels on one vessel imported 3 months earlier revealed a traumatic occurrence caused by the overland, air-exposed transportation. Results show that a large number of individuals survived after re-immersion in Irish waters and continued to grow. 3. Zebra mussels from populations in Ireland, Great Britain, the Netherlands, France and North America, were analysed using amplified fragment length polymorphisms (AFLP)-fingerprinting to determine the origin of the Irish invasion. Phylogenetic analysis revealed that Irish and British mussels clustered closely together, suggesting an introduction from Britain. 4. Ireland remained un-invaded by the zebra mussel for more than 150 year. The introduction of the zebra mussel to Ireland occurred following the abolition of value added tax in January 1993 on imported second-hand boats from the European Union (UK and continental Europe). This, together with a favourable monetary exchange rate at that time, may have increased the risk of invasion of the zebra mussel.

Published
2003

10. Diversity and enrichment of nitrite-dependent anaerobic methane oxidizing bacteria from wastewater sludge

Author

Luesken, F.A., Alen, T.A. Van, Biezen, E. Van Der, Frijters, C., Toonen, G., Kampman, C., Hendrickx, T.L.G., Zeeman, G., Temmink, H., Strous, M., Camp, H.J.M. op den, Jetten, M.S.M., Luesken, F.A., Alen, T.A. Van, Biezen, E. Van Der, Frijters, C., Toonen, G., Kampman, C., Hendrickx, T.L.G., Zeeman, G., Temmink, H., Strous, M., Camp, H.J.M. op den, and Jetten, M.S.M.

Abstract

Contains fulltext : 94172.pdf (publisher's version ) (Closed access)

Published
2012

14. The organellar genome and metabolic potential of the hydrogen-producing mitochondrion of Nyctotherus ovalis

Author

Graaf, R.M. de, Ricard, G.N.S., Alen, T.A. van, Duarte, I., Dutilh, B.E., Burgtorf, C., Kuiper, J.W., Staay, G.W.M. van der, Tielens, A.G.G.M., Huynen, M.A., Hackstein, J.H., Graaf, R.M. de, Ricard, G.N.S., Alen, T.A. van, Duarte, I., Dutilh, B.E., Burgtorf, C., Kuiper, J.W., Staay, G.W.M. van der, Tielens, A.G.G.M., Huynen, M.A., and Hackstein, J.H.

Abstract

Contains fulltext : 94179.pdf (publisher's version ) (Closed access) Contains fulltext : 94179.pdf (preprint version ) (Open Access)

Published
2011

16. Pmoa primers for detection of anaerobic methanotrophs

Author

Luesken, F.A., Zhu, B.L., Alen, T.A. van, Butler, M.K., Diaz, M.R., Song, B., Camp, H.J.M. op den, Jetten, M.S.M., Ettwig, K.F., Luesken, F.A., Zhu, B.L., Alen, T.A. van, Butler, M.K., Diaz, M.R., Song, B., Camp, H.J.M. op den, Jetten, M.S.M., and Ettwig, K.F.

Abstract

Contains fulltext : 92199.pdf (publisher's version ) (Open Access)

Published
2011

19. The mitochondrial genomes of the ciliates Euplotes minuta and Euplotes crassus

Author

Graaf, R.M. de, Alen, T.A. van, Dutilh, B.E., Kuiper, J.W.P., Zoggel, H.J. van, Huynh, M.B., Gortz, H.D., Huynen, M.A., Hackstein, J.H.P., Graaf, R.M. de, Alen, T.A. van, Dutilh, B.E., Kuiper, J.W.P., Zoggel, H.J. van, Huynh, M.B., Gortz, H.D., Huynen, M.A., and Hackstein, J.H.P.

Abstract

Contains fulltext : 75728.pdf (publisher's version ) (Closed access)

Published
2009

20. The hydrogenosomes of Psalteriomonas lanterna.

Author

Graaf, R.M. de, Duarte, I., Alen, T.A. van, Kuiper, J.W., Schotanus, K., Rosenberg, J., Huynen, M.A., Hackstein, J.H., Graaf, R.M. de, Duarte, I., Alen, T.A. van, Kuiper, J.W., Schotanus, K., Rosenberg, J., Huynen, M.A., and Hackstein, J.H.

Abstract

Contains fulltext : 75717.pdf (preprint version ) (Open Access), BACKGROUND: Hydrogenosomes are organelles that produce molecular hydrogen and ATP. The broad phylogenetic distribution of their hosts suggests that the hydrogenosomes of these organisms evolved several times independently from the mitochondria of aerobic progenitors. Morphology and 18S rRNA phylogeny suggest that the microaerophilic amoeboflagellate Psalteriomonas lanterna, which possesses hydrogenosomes and elusive "modified mitochondria", belongs to the Heterolobosea, a taxon that consists predominantly of aerobic, mitochondriate organisms. This taxon is rather unrelated to taxa with hitherto studied hydrogenosomes. RESULTS: Electron microscopy of P. lanterna flagellates reveals a large globule in the centre of the cell that is build up from stacks of some 20 individual hydrogenosomes. The individual hydrogenosomes are surrounded by a double membrane that encloses a homogeneous, dark staining matrix lacking cristae. The "modified mitochondria" are found in the cytoplasm of the cell and are surrounded by 1-2 cisterns of rough endoplasmatic reticulum, just as the mitochondria of certain related aerobic Heterolobosea. The ultrastructure of the "modified mitochondria" and hydrogenosomes is very similar, and they have the same size distribution as the hydrogenosomes that form the central stack.The phylogenetic analysis of selected EST sequences (Hsp60, Propionyl-CoA carboxylase) supports the phylogenetic position of P. lanterna close to aerobic Heterolobosea (Naegleria gruberi). Moreover, this analysis also confirms the identity of several mitochondrial or hydrogenosomal key-genes encoding proteins such as a Hsp60, a pyruvate:ferredoxin oxidoreductase, a putative ADP/ATP carrier, a mitochondrial complex I subunit (51 KDa), and a [FeFe] hydrogenase. CONCLUSION: Comparison of the ultrastructure of the "modified mitochondria" and hydrogenosomes strongly suggests that both organelles are just two morphs of the same organelle. The EST studies suggest that the hydrogenosomes

Published
2009

21. Macronuclear genome structure of the ciliate Nyctotherus ovalis: Single-gene chromosomes and tiny introns.

Author

Ricard, G.N.S., Graaf, R.M. de, Dutilh, B.E., Duarte, I., Alen, T.A. van, Hoek, A.H. van, Boxma, B., Staay, G.W.M. van der, Moon-van der Staay, S.Y., Chang, W., Landweber, L.F., Hackstein, J.H.P., Huijnen, M.A., Ricard, G.N.S., Graaf, R.M. de, Dutilh, B.E., Duarte, I., Alen, T.A. van, Hoek, A.H. van, Boxma, B., Staay, G.W.M. van der, Moon-van der Staay, S.Y., Chang, W., Landweber, L.F., Hackstein, J.H.P., and Huijnen, M.A.

Abstract

Contains fulltext : 69109.pdf ( ) (Open Access)

Published
2008

22. The (FeFe) hydrogenase of Nyctotherus ovalis has a chimeric origin.

Author

Boxma, B., Ricard, G.N.S., Hoek, A.H. van, Severing, E., Moon-van der Staay, S.Y., Staay, G.W.M. van der, Alen, T.A. van, Graaf, R.M. de, Cremers, G., Kwantes, M., McEwan, N.R., Newbold, C.J., Joany, J.P., Michalowski, T., Pristas, P., Huynen, M.A., Hackstein, J.H.P., Boxma, B., Ricard, G.N.S., Hoek, A.H. van, Severing, E., Moon-van der Staay, S.Y., Staay, G.W.M. van der, Alen, T.A. van, Graaf, R.M. de, Cremers, G., Kwantes, M., McEwan, N.R., Newbold, C.J., Joany, J.P., Michalowski, T., Pristas, P., Huynen, M.A., and Hackstein, J.H.P.

Abstract

Contains fulltext : 185869.pdf (publisher's version ) (Open Access)

Published
2007

24. Methane production by terrestrial arthropods.

Author

König, H., Varma, A., Hackstein, J.H.P., Alen, T.A. van, Rosenberg, J., König, H., Varma, A., Hackstein, J.H.P., Alen, T.A. van, and Rosenberg, J.

Abstract

Item does not contain fulltext

Published
2005

25. An anaerobic mitochondrion that produces hydrogen

Author

Boxma, B., Graaf, R.M. de, Staay, G.W.M. van der, Alen, T.A. van, Ricard, G.N.S., Gabaldon, T., Hoek, A.H.A.M. van, Moon-van der Staay, S.Y., Koopman, W.J.H., Hellemond, J.J. van, Tielens, A.G.G.M., Friedrich, T., Veenhuis, M., Huynen, M.A., Hackstein, J.H.P., Boxma, B., Graaf, R.M. de, Staay, G.W.M. van der, Alen, T.A. van, Ricard, G.N.S., Gabaldon, T., Hoek, A.H.A.M. van, Moon-van der Staay, S.Y., Koopman, W.J.H., Hellemond, J.J. van, Tielens, A.G.G.M., Friedrich, T., Veenhuis, M., Huynen, M.A., and Hackstein, J.H.P.

Abstract

Contains fulltext : 33281.pdf (publisher's version ) (Closed access)

Published
2005

26. A mitochondrial genome in the hydrogenosomes of the ciliate Nyctotherus ovalis

Author

Graaf, R.M. de, Staay, G.W.M. van der, Alen, T.A. van, Moon-van der Staay, S.Y., Boxma, B., Hackstein, J.H.P., Graaf, R.M. de, Staay, G.W.M. van der, Alen, T.A. van, Moon-van der Staay, S.Y., Boxma, B., and Hackstein, J.H.P.

Abstract

VAAM Jahrestagung, 29 maart 2004, Item does not contain fulltext

Published
2004

27. Novel Fe-hydrogenases from the rumen ciliate metagenome. Hydrogenase

Author

Severing, E., Boxma, B., Alen, T.A. van, Ricard, G.N.S., Hoek, A.H.A.M. van, Moon-van der Staay, S.Y., Staay, G.W.M. van der, Graaf, R.M. de, Cremers, G., Kwantes, M., McEwan, N.R., Newbold, C.J., Jouany, J.P., Michalowski, T., Pristas, P., Huynen, M.A., Hackstein, J.H.P., Severing, E., Boxma, B., Alen, T.A. van, Ricard, G.N.S., Hoek, A.H.A.M. van, Moon-van der Staay, S.Y., Staay, G.W.M. van der, Graaf, R.M. de, Cremers, G., Kwantes, M., McEwan, N.R., Newbold, C.J., Jouany, J.P., Michalowski, T., Pristas, P., Huynen, M.A., and Hackstein, J.H.P.

Abstract

7th International Hydrogenase Conference, 24 augustus 2004, Item does not contain fulltext

Published
2004

28. A mitochondrial genome in the hydrogenosomes of the ciliate Nyctotherus ovalis

Author

Staay, G.W.M. van der, Graaf, R.M. de, Alen, T.A. van, Moon-van der Staay, S.Y., Boxma, B., Hoek, A.H.A.M. van, Gabaldon, T., Huynen, M.A., Hackstein, J.H.P., Staay, G.W.M. van der, Graaf, R.M. de, Alen, T.A. van, Moon-van der Staay, S.Y., Boxma, B., Hoek, A.H.A.M. van, Gabaldon, T., Huynen, M.A., and Hackstein, J.H.P.

Abstract

Item does not contain fulltext

Published
2004

30. Fe-Hydrogenases from the rumen: a metagenomic approach

Author

Severing, E., Ederveen, A., Moon-van der Staay, S.Y., Staay, G.W.M. van der, Graaf, R.M. de, Alen, T.A. van, McEwan, N.R., Newbold, J.C., Jouany, J.P., Michalowski, T., Pristas, P., Fried, J., Ricard, G.N.S., Huynen, M.A., Hackstein, J.H.P., Severing, E., Ederveen, A., Moon-van der Staay, S.Y., Staay, G.W.M. van der, Graaf, R.M. de, Alen, T.A. van, McEwan, N.R., Newbold, J.C., Jouany, J.P., Michalowski, T., Pristas, P., Fried, J., Ricard, G.N.S., Huynen, M.A., and Hackstein, J.H.P.

Abstract

VAAM Jahrestagung, 29 maart 2004, Item does not contain fulltext

Published
2004

31. Hydrogenases from bovine rumen: a metagenomic approach

Author

Severing, E., Ederveen, A., Staay, G.W.M. van der, Moon-van der Staay, S.Y., Graaf, R.M. de, Alen, T.A. van, McEwan, N.R., Newbold, J.C., Jouany, J.P., Michalowski, T., Pristas, P., Fried, J., Ricard, G.N.S., Huynen, M.A., Hackstein, J.H.P., Severing, E., Ederveen, A., Staay, G.W.M. van der, Moon-van der Staay, S.Y., Graaf, R.M. de, Alen, T.A. van, McEwan, N.R., Newbold, J.C., Jouany, J.P., Michalowski, T., Pristas, P., Fried, J., Ricard, G.N.S., Huynen, M.A., and Hackstein, J.H.P.

Abstract

Jahrestagung der DGP, 3 maart 2004, Item does not contain fulltext

Published
2004

32. Fe-Hydrogenases from bovine rumen: a metagenomic approach

Author

Severing, E., Ederveen, A., Staay, G.W.M. van der, Moon-van der Staay, S.Y., Graaf, R.M. de, Alen, T.A. van, McEwan, N.R., Newbold, J.C., Jouany, J.P., Michalowski, T., Pristas, P., Fried, J., Ricard, G.N.S., Huynen, M.A., Hackstein, J.H.P., Severing, E., Ederveen, A., Staay, G.W.M. van der, Moon-van der Staay, S.Y., Graaf, R.M. de, Alen, T.A. van, McEwan, N.R., Newbold, J.C., Jouany, J.P., Michalowski, T., Pristas, P., Fried, J., Ricard, G.N.S., Huynen, M.A., and Hackstein, J.H.P.

Abstract

Item does not contain fulltext

Published
2004

33. Hydrogenosomes: convergent adaptions of mitochondria to anaerobic environments

Author

Hackstein, J.H.P., Akhmanova, A.S., Voncken, F.G.J., Hoek, A., Alen, T.A. van, Boxma, B., Moon-van der Staay, S.Y., Leunissen, J.A.M., Huynen, M.A., Rosenberg, J., Veenhuis, R.T., Hackstein, J.H.P., Akhmanova, A.S., Voncken, F.G.J., Hoek, A., Alen, T.A. van, Boxma, B., Moon-van der Staay, S.Y., Leunissen, J.A.M., Huynen, M.A., Rosenberg, J., and Veenhuis, R.T.

Abstract

Item does not contain fulltext

Published
2001

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