Since 2012
* corresponding author(s), names of students and staffs of our lab are underlined.
Research articles
FY 2023
- Tokuda M, Shintani M*. Microbial evolution through horizontal gene transfer
by mobile genetic elements (mini-review), Microbial Biotechnology, e14408, doi: 10.1111/1751-7915.14408 - Yamashita W, Ojima S, Tamura A, Azam AH, Kondo K, Yuancheng Z, Cui L, Shintani M, Suzuki M, Takahashi Y, Watashi K, Tsuneda S, Kiga K*, Harnessing a T1 phage-derived spanin for developing phage-based antimicrobial development, BioDesign Research, in press, Article ID: 0028, DOI: 10.34133/bdr.0028.
- Maeda Y, Hirakawa T, Suzuki S, Suhaimi N, Syahirah N, Anuar S, Yoneda K, Shintani M, Suzuki K, Sunagawa N, Kawachi M, Suzuki I, Hara H* Chromosome-scale genome assembly of an acidophilic microalga Tetratostichococcus P1 isolated from a tropical peatland in Malaysia, Microbiology Resource Announcements, in press.
- Kanno M, Shiota T, Ueno S, Takahara M, Haneda K, Tahara YO, Shintani M, Nakao R, Miyata M, Kimbara K, Futamata H, Tashiro Y* (2023) Identification of genes involved in enhanced membrane vesicle formation in Pseudomonas aeruginosa biofilms: Surface sensing facilitates vesiculation, Frontiers in Microbiology, doi: 10.3389/fmicb.2023.1252155
- Shintani M, Vestergaard G, Milaković M, Kublik S, Smalla K, Schloter M, Udiković-Kolić N*, 2023, Integrons, transposons, and IS elements promote diversification of multidrug resistance plasmids and adaptation of their hosts to antibiotic pollutants from pharmaceutical companies, Environmental Microbiology,25(12):3035-3051, doi: 10.1111/1462-2920.16481
- Ara I, Moriuchi R, Dohra H, Kimbara K, Ogawa N, Shintani M*, 2023, Isolation and genomic analysis of 3-chlorobenzoate-degrading bacteria from soil, Microorganisms, 11(7): 1684; https://doi.org/10.3390/microorganisms11071684
- Tokuda M, Yuki M, Ohkuma M, Kimbara K, Suzuki H, Shintani M*, 2023, Transconjugant range of PromA plasmids in microbial communities is predicted by sequence similarity with the bacterial host chromosome, Microbial Genomics, 9(6): mgen001043. doi: 10.1099/mgen.0.001043.
FY 2022
- Shintani M*, Haruo Suzuki*, Hideaki Nojiri, Masato Suzuki*, 2023, Reconsideration of the previously classified incompatibility groups of plasmids, IncP-1 and IncP-11, Environmental Microbiology, 25(6), 1071–1076. doi:10.1111/1462-2920.16345
- Hishinuma T, Tada T*, Tohya M, Shintani M, Suzuki M, Shimojima M, Kirikae T, 2023, Plasmids harboring a tandem duplicate of blaVIM-24 in carbapenem-resistant ST1816 Pseudomonas aeruginosa in Japan, Microbial Drug Resistance
;29(1):10-17, doi: 10.1089/mdr.2022.0168. - Obi N, Moriuchi R, Dohra H, Kimbara K, Shintani M*, Yoshida N*, 2022, Complete Genome Sequence of Rhodococcus qingshengii N9T-4, Microbiology Resource Announcements, e0089122. doi: 10.1128/mra.00891-22.
- Hayakawa M+, Tokuda M+, Kaneko K+, Nakamichi K+, Yamamoto Y+, Kamijo T+, Umeki H+, Chiba R, Yamada R, Mori M, Yanagiya K, Moriuchi R*, Yuki M, Dohra H, Futamata H, Ohkuma M, Kimbara K, Shintani M*, 2022 (+equally contributed), Hitherto-Unnoticed Self-Transmissible Plasmids Widely Distributed among Different Environments in Japan, Applied and Environmental Microbiology, 80(18):e011422 (Spotlight)
- Ikeda Y, Kishimoto M, Shintani M, Yoshida N* 2022 Oligotrophic gene expression in Rhodococcus erythropolis N9T-4 under various nutrient conditions, Microorganisms, 10(9):1725. doi:10.3390/microorganisms10091725
FY 2021
- Shintani M+, Suzuki H+, Nojiri H, Suzuki M+*. (+ equally contributed) 2022 Precise classification of antimicrobial resistance-associated IncP-2 megaplasmids for molecular epidemiological studies on Pseudomonas species, Journal of Antimicrobial Chemotherapy, 77(4): 1202–1204.
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Aktar S, Okamoto Y, Ueno S, Tahara YO, Imaizumi M, Shintani M, Miyata M, Futamata H, Nojiri H, Tashiro Y*. 2021. Incorporation of plasmid DNA into bacterial membrane vesicles by peptidoglycan defects in Escherichia coli. Frontiers in Microbiology, 12:747606，doi:10.3389/fmicb.2021.747606
- Current Microbiology, 78(8): 3268-3276. doi: 10.1007/s00284-021-02561-2.
FY 2020
- Effects of environmental factors and coexisting substrates on PAH degradation and transcriptomic responses of the defined bacterial consortium OPK. Environmental Pollution, 277:116769. doi: 10.1016/j.envpol.2021.116769.
- 2020 (+equally contributed). Plant Species-Dependent Increased Abundance and Diversity of IncP-1 Plasmids in the Rhizosphere: New Insights Into Their Role and Ecology. Frontiers in Microbiology, 11:590776. doi: 10.3389/fmicb.2020.590776.
- Takaki K, Tahara YO, Nakamichi N, Hasegawa Y, Shintani M, Ohkuma M, Miyata M, Futamata H, Tashiro Y*,2020, Multilamellar and multivesicular outer membrane vesicles produced by a Buttiauxella agrestis tolB mutant “, Applied and Environmental Microbiology. doi: 10.1128/AEM.01131-20.
- , , , , , , , , , , ,
- (+equally contributed) Determination of Plasmid pSN1216-29 Host Range and the Similarity in Oligonucleotide Composition Between Plasmid and Host Chromosomes”Frontiers in Microbiology, 11:1187. doi: 10.3389/fmicb.2020.01187.
FY 2019
- Miyoshi Y, Okada J, Urata T, Shintani M*, Kimbara K*,2020, “A rotational slurry bioreactor accelerates biodegradation of A-fuel in oil-contaminated soil even under low temperature conditions”, Microorganisms, 8(2):291. doi: 10.3390/microorganisms8020291.
- Ikegaya R, Shintani M, Kimbara K, Fukuda M, Yoshida N*, 2020, “Identification of a transcriptional regulator for oligotrophy-responsive promoter in Rhodococcus erythropolis N9T-4″, Bioscience, Biotechnology, and Biochemistry, 84(4):865-868.
- Maejima Y, Iino T, Muraguchi Y, Fukuda K, Ohkuma M, Suzuki T, Moriuchi R, Dohra H, Kimbara K, Shintani M*, 2020, “Chryseotalea sanaruensis gen. nov., sp., nov., a member of the family Cytophagaceae, isolated from a brackish lake in Hamamatsu Japan“, Current Microbiology, 77(2):306-312.
- Miyazawa D, Thanh LTH, Tani A, Shintani M*, Loc NH, Hatta T, Kimbara K*, 2019. “Isolation and characterization of genes responsible for naphthalene degradation from thermophilic naphthalene degrader, Geobacillus sp. JF8“, Microorganisms, 8(1):44. doi: 10.3390/microorganisms8010044.
- Ngoc Thi TV, Hoang Sinh DD, Ha Thanh LT, Huy ND, Tue NH, Shintani M, Kimbara K*, Loc NH*. “Cloning, expression and characterization of catechol 1,2-dioxygenase from Burkholderia cepacia“, Journal of General and Applied Microbiology, in press. doi: 10.2323/jgam.2019.06.002.
- Maejima Y, Iino T, Muraguchi Y, Ohkuma M, Kimbara K, Shintani M.* 2019, “Algoriphagus sanaruensis sp. nov., a member of the family Cyclobacteriaceae, isolated from a brackish lake in Hamamatsu, Japan”, International Journal of Systematic and Evolutionary Microbiology, 69(7):2108-2113. doi: 10.1099/ijsem.0.003447.
- Thanh LTH, Thi TVN, Shintani M, Moriuchi R, Dohra H, Loc NH, Kimbara K* 2019,“Isolation and characterization of a moderate thermophilic Paenibacillus naphthalenovorans strain 4B1 capable of degrading dibenzofuran from dioxin-contaminated soil in Vietnam.”,
Journal of Bioscience and Bioengineering, 128(5):571-577. doi: 10.1016/j.jbiosc.2019.05.006.
FY 2018
- Shintani M*, Ohkuma M, Kimbara K. 2019 “High-resolution comparison of bacterial conjugation frequencies", Journal of Visualized Experiments, (143), e57812, doi:10.3791/57812
- Yanagiya K+, Maejima Y+, Nakata H+, Tokuda M, Moriuchi R, Dohra H, Inoue I, Ohkuma M, Kimbara K, Shintani, M* (+equally contributed), “Novel self-transmissible and broad-host-range plasmids exogenously captured from anaerobic granules or cow manure”, Frontiers in Microbiology, 2018, 9: 2602, doi: 10.3389/fmicb.2018.02602
- Shintani M, Sugiyama K, Sakurai T, Yamada K, Kimbara K*. 2019 “Biodegradation of A-fuel oil in soil samples with bacterial mixtures of Rhodococcus and Gordonia strains under low temperature conditions”, Journal of Bioscience and Bioengineering. 127(2):197-200, pii: S1389-1723(18)30309-8. doi: 10.1016/j.jbiosc.2018.07.018.
FY 2017
- Maejima Y, Kushimoto K, Muraguchi Y, Fukuda K, Miura T, Yamazoe A, Kimbara K, Shintani M*. “Proteobacteria and Bacteroidetes are major phyla of filterable bacteria passing through 0.22 μm pore size membrane filter, in Lake Sanaru, Hamamatsu, Japan”, 2018. Bioscience, Biotechnology, and Biochemistry. 82(7):1260-1263.
- Masuda S, Suzuki Y, Fujitani Y, Mitsui R, Nakagawa T, Shintani M, Tani A*. 2018. “Lanthanide-dependent regulation of methylotrophy in Methylobacterium aquaticum strain 22A”, mSphere. 3(1). pii: e00462-17. doi: 10.1128/mSphere.00462-17.
- Sakuda A, Suzuki-Minakuchi C, Matsui K, Takahashi Y, Okada K, Yamane H, Shintani M*, Nojiri H*. 2018. “Divalent cations increase the conjugation efficiency of the incompatibility P-7 group plasmid pCAR1 among different Pseudomonas hosts”, Microbiology. 164:20-27. doi: 10.1099/mic.0.000583.
- Nakazawa S, Haramiishi A, Fukuda K, Kanayama Y, Watanabe T, Yuki M, Ohkuma M, Takeda K, Kimbara K, Shintani M*. 2017. “Different transferability of incompatibility (Inc) P-7 plasmid pCAR1 and IncP-1 plasmid pBP136 in stirring liquid conditions”, PLoS One. 12(10):e0186248. doi: 10.1371/journal.pone.0186248. eCollection 2017. Erratum in: PLoS One. 2018 Jan 11;13(1):e0191393.
- Wanapaisan P, Laothamteep N, Vejarano F, Chakraborty J, Shintani M, Muangchinda C, Morita T, Suzuki-Minakuchi C, Inoue K, Nojiri H*, Pinyakong O*. 2018. “Synergistic degradation of pyrene by five culturable bacteria in a mangrove sediment-derived bacterial consortium”, Journal of Hazardous Materials, 342:561-570. doi: 10.1016/j.jhazmat.2017.08.062.
FY 2016
- Tashiro Y, Hasegawa Y, Shintani M, Takaki K, Ohkuma M, Kimbara K, Futamata H. 2017. “Interaction of bacterial membrane vesicles with specific species and their potential for delivery to target cells”, Frontiers in Microbiology. 8:571. doi: 10.3389/fmicb.2017.00571. eCollection 2017.
- Shintani M. 2017. “The behavior of mobile genetic elements (MGEs) in different environments”, Bioscience, Biotechnology, Biochemisty. 81(5):854-862. doi: 10.1080/09168451.2016.1270743.
- Muraguchi Y, Kushimoto K, Ohtsubo Y, Suzuki T, Dohra H, Kimbara K, Shintani
M. 2016. “Complete genome sequence of Algoriphagus sp. strain M8-2, isolated from a brackish lake”, Genome Announcement 4(3) pii: e00347-16. doi: 10.1128/genomeA.00347-16.
FY 2015
- Yanagida K, Sakuda A, Suzuki-Minakuchi C, Shintani M, Matsui K, Okada K
Nojiri H*. 2016. “Comparisons of the transferability of plasmids pCAR1, pB10, R388, and NAH7 among Pseudomonas putida at different cell densities”,
Bioscience, Biotechnology, and Biochemistry, 80(5):1020-3. doi: 10.1080/09168451.2015.1127131. - Yun C-S#, Takahashi Y#, Shintani M*, Takeda T, Suzuki-Minakuchi C, Okada
K, Yamane H, Nojiri H*. (#contributed equally to this work), 2016.
“MvaT family proteins encoded on IncP-7 plasmid pCAR1 and the host chromosome
regulate host transcriptome cooperatively but differently”,
Applied and Environmental Microbiology, 82(3)832-842. doi:10.1128/AEM.03071-15 - Suzuki S#, Shintani M#, Sanchez ZK, Kimura K, Numata M, Yamazoe A, Kimbara
K*. (#contributed equally to this work), 2015. “Effects of phosphate addition on methane fermentation in the batch and upflow anaerobic sludge blanket (UASB) reactors”, Applied Microbiology and Biotechnology, 99(24):10457-10466. doi:10.1007/s00253-015-6942-1 - Tani A, Ogura Y, Hayashi T, Kimbara K*. 2015. “Complete genome sequence of Methylobacterium aquaticum strain 22A, isolated from Racomitrium japonicum moss”, Genome Announcement, 3(2). pii: e00266-15. doi: 10.1128/genomeA.00266-15.
- Tani A, Sahin N, Fujitani Y, Kato A, Sato K, Kimbara K*. 2015.
“Methylobacterium species promoting rice and barley growth and interaction
specificity revealed with whole-cell matrix-assisted laser desorption/ionization-time-of-flight mass spectrometry (MALDI-TOF/MS) analysis”, PLoS One. 10(6):e0129509. doi: 10.1371/journal.pone.0129509. - Tani A, Ogura Y, Hayashi T, Kimbara K*. 2015. “Bacterial-biota dynamics of eight bryophyte species from different ecosystems”, Saudi J Biol Sci. 2015 Mar;22(2):204-10. doi: 10.1016/j.sjbs.2014.07.009.
- Yuki M, Kuwahara H, Shintani M, Izawa K, Sato T, Starns D, Hongoh Y, Ohkuma
M*. 2015. “Dominant ectosymbiotic bacteria of cellulolytic protists in the termite
gut also have the potential to digest lignocellulose”, Environmental Microbiology, 2015 Jun 16. doi: 10.1111/1462-2920.12945.
FY 2014
- Suzuki-Minakuchi C, Hirotani R, Shintani M, Takeda T, Takahashi Y, Matsui
K, Vasileva D, Yun CS, Okada K, Yamane H, Nojiri H. 2015.
Effects of three different nucleoid-associated proteins encoded on the
IncP-7 plasmid pCAR1 on the host Pseudomonas putida KT2440.
Applied and Environmental Microbiology, 81(8): 2869-2880. - Takahashi Y*, Shintani M*, Takase N, Kazo Y, Kawamura F, Hara H, Nishida
H, Okada K, Yamane H, Nojiri H. (contributed equally to this work), 2015.
Modulation of primary cell function of host Pseudomonas bacteria by the
conjugative plasmid pCAR1.
Environmental Microbiology, 17(1):134-155. doi:10.1111/1462-2920.12515 - Fukuda K, Hosoyama A, Tsuchikane K, Ohji S, Yamazoe A, Fujita N, Shintani
M, Kimbara K. 2014.
Complete genome sequence of polychlorinated biphenyl degrader Comamonas testosteroni TK102 (NBRC 109938).
Genome Announcement, 2(5). doi:10.1128/genomeA.00865-14.
FY 2013
- Shintani M, Ohtsubo Y, Fukuda K, Hosoyama A, Ohji S, Yamazoe A, Fujita
N, Nagata Y, Tsuda M, Hatta T, Kimbara K. 2014.
Complete genome sequence of the thermophilic PCB degrader Geobacillus sp. JF8 (NBRC 109937)
Genome Announcement, 2(1): doi:10.1128/genomeA.01213-13 - Shintani M, Matsui K, Inoue JI, Hosoyama A, Ohji S, Yamazoe A, Nojiri H,
Kimbara K, Ohkuma M. 2014.
Single-cell analyses revealed transfer ranges of IncP-1, IncP-7, and IncP-9
plasmids in a soil bacterial community.
Applied and Environmental Microbiology, 80(1): 138-145. - Shintani M, Hosoyama A, Ohji S, Tsuchikane K, Takarada H, Yamazoe A, Fujita
N, Nojiri H. 2013.
Complete genome sequence of the carbazole degrader Pseudomonas resinovorans strain CA10 (NBRC 106553).
Genome Announcement, 1(4): doi:10.1128/genomeA.00488-13.
FY 2012
- Sanchez Z, Tani A, Kimbara K. 2013.
Extensive reduction in cell viability and enhanced matrix production in
Pseudomonas aeruginosa PAO1 flow biofilms treated with D-amino acid mixture.
Applied and Environmental Microbiology, 79(4): 1396-1399. - Sanchez Z, Tani A, Suzuki N, Kariyama R, Kumon H, Kimbara K. 2013.
Assessment of change in biofilm architecture by nutrient concentration
using a multichannel microdevice flow system.
Journal of Bioscience and Bioengineering, 115(3): 326-331. - Miyakoshi M, Shintani M, Inoue K, Terabayashi T, Sai F, Ohkuma M, Nojiri
H, Nagata Y, Tsuda M. 2012.
ParI, an orphan ParA family protein from Pseudomonas putida KT2440-specific genomic island, interferes with the partition system of
IncP-7 plasmids.
Environmental Microbiology, 14(11): 2946-2959. - Tani A, Sahin N, Matsuyama Y, Enomoto T, Nishimura N, Yokota A, Kimbara
K. 2012.
High-throughput identification and screening of novel Methylobacterium species using whole-cell MALDI-TOF/MS analysis.
PLoS One, 7(3): e33800. - Tani A, Takai Y, Suzukawa I, Akita M, Murase H, Kimbara K. 2012.
Practical application of methanol-mediated mutualistic symbiosis between Methylobacterium species and a roof greening moss, Racomitrium japonicum.
PLoS One, 2012;7(3):e33800.
Reviews and books
-
- Shintani M*, Suzuki H* (2019) “Plasmids and their hosts”, In “DNA Traffic in the Environment” (eds. Nishida H, and OshimaT) Springer, in press.
- Yano H*, Shintani M, Tomita M, Suzuki H*, Oshima T (2019) “Reconsidering plasmid maintenance factors for computational plasmid design.” Computational and Structural Biotechnology Journal, 17:70-81. doi: 10.1016/j.csbj.2018.12.001. (review)
- 新谷政己「Q98．土壌細菌や昆虫体内の腸内細菌の解析とソーティングについて教えてください」，実験医学別冊『ラボ必携 フローサイトメトリーQ&A』，羊土社，戸村道夫 編. 2017
- 新谷政己* 「耐性菌と耐性獲得機構」，『食と微生物の辞典』，朝倉書店，北本勝ひこ ，春田伸，丸山潤一，後藤慶一，尾花望 ，斉藤勝晴 編，4-28. 2017.
- 新谷政己
シングルセル解析に基づく環境中におけるプラスミドの宿主域の解明
バイオサイエンスとインダストリー 74(3) 212-216． - Shintani M, Suuki-Minakuchi C, Nojiri H. 2015.
Nucleoid-associated proteins encoded on plasmids: Occurrence and mode of
function.
Plasmid, 80:32-44. pii: S0147-619X(15)00041-4. doi: 10.1016/j.plasmid.2015.04.008. - 新谷政己，金原和秀．2015.
プラスミドゲノミクス～全塩基配列解読済みのプラスミドデータベースの整備～
環境バイオテクノロジー学会誌，14(2):1-6. - Shintani M, Sanchez Z, Kimbara K. 2015.
Genomics of microbial plasmids: classification and identification based
on replication and transfer systems and host taxonomy.
Frontiers in Microbiology, 6:242, doi: 10.3389/fmicb.2015.00242. - 加藤純一，金原和秀，佐々木健，中村雅哉，中島田豊，平井浩文，大塚祐一郎，新谷政己．2014.
放射能汚染植物バイオマス減容化バイオ技術の開発
生物工学会誌，92(6): 287-290. - 新谷政己，松井一泰，金原和秀，野尻秀昭．2013.
環境中におけるプラスミドの挙動解析
環境バイオテクノロジー学会誌，13(2):125-134. - 松井一泰，新谷政己，山根久和，野尻秀昭. 2011.
プラスミドの接合伝達に関与する遺伝因子・環境因子
環境バイオテクノロジー学会誌，11(1-2):69-75． - Shintani M, Takahashi Y, Yamane H, Nojiri H. 2010.
The behavior and significance of degradative plasmids belonging to Inc
groups in Pseudomonas within natural environments and microcosms.
Microbes and Environments, 25(4):253-265. - 金原和秀，公文裕巳．2010.
バイオフィルム研究における基盤技術の開発
水環境学会誌、33: 100-105. - 新谷政己, 野尻秀昭．2009.
モデル環境における可動性遺伝因子の挙動（＜特集＞土壌環境での細菌の生き様を探る）
生物工学会誌，87(9): 431-433. - 野尻秀昭, 高橋裕里香, 新谷政己．2009.
環境中での微生物利用における遺伝子の水平伝播の意義
バイオサイエンスとインダストリー，67: 59-64. - 高橋裕里香, 新谷政己, 山根久和，野尻秀昭．2008.
宿主の代謝能力に適応した分解プラスミドの遺伝子構造変化
環境バイオテクノロジー学会誌，8(2): 89-94． - 金原和秀，飯島想，下村有美，谷明生，2008.
土壌環境中の細菌の検出法
環境バイオテクノロジー学会誌 8(2): 81-87. - 金原和秀，2007.
環境微生物の生き様を探る
化学と生物，45(12): 869-875. - 野尻秀昭, 宮腰昌利, 新谷政己, 西田洋巳. 2007.
プラスミドは環境中でどのように振る舞うのか :
接合伝達がひき起こすプラスミド機能発現の多様性解明に向けて
化学と生物，45(9): 635-643. - Kimbara, K. 2005.
Recent developments in the study of microbial aerobic degradation of polychlorinated
biphenyls.
Microbes and Environments, 20(3), 127-134. - Nojiri H, Shintani M, Omori T. 2004.
Divergence of mobile genetic elements involved in the distribution of xenobiotic-catabolic
capacity.
Applied Microbiology and Biotechnology, 64(2):154-174. - 金原和秀，潮木知良，京谷隆，志村稔，早川敏雄．2004．
光脱塩素と生物分解のハイブリッド法によるPCB処理
生物工学会誌，82(2)：56-62.
著書
- 新谷政己，2016.
耐性菌と耐性獲得機構
『食と微生物の辞典』
朝倉書店，北本勝ひこ ら編，4-28. - 新谷政己，2015.
環境中における可動性遺伝因子の動態解析
『難培養微生物研究の最新技術III』
シーエムシー出版，大熊盛也，野田悟子 監修，第22章（pp. 207-217） - Shintani M, Kimbara K. 2014.
Genomic features and genome-wide analyses of dioxin-like compound-degraders.
In “Manual of Environmental Microbiology, 4th edition” (ed. C.
Nakatsu), ASM press, in press. - Shintani M, Takahashi, Y, Nojiri H. 2014.
Conjugative element, a host chromosomal function modifier.
In “Biodegradative Bacteria” (eds. H. Nojiri, M. Tsuda, M. Fukuda, and
Y. Kamagata), Springer, pp 129-152. - Shintani M, Nojiri H. 2013.
Mobile genetic elements (MGEs) carrying catabolic genes.
In “Management of Microbial Resources in the Environment” (eds.
A. Malik, E. Grohmann, M. Alves), Springer, pp 167-214. - Nojiri H, Sota M, Shintani M. 2009.
Catabolic plasmids involved in the degradation of polycyclic aromatic hydrocarbons
and heteroaromatic compounds.
In “Microbiology Monographs: Microbial Megaplasmids” (ed. E. Schwartz), Springer,
11: 55-90.