France is spending US$40 million in 1991, and US$50 million in 1992, on genome mapping
and sequencing: Human Genome News
2:5 (Jan 1991), 12. In France two private nonprofit groups (Centre d'Etude des Polymorphismes
Humain and Genethon) are spending more money than the French Government on genome
mapping: Science
251 (1991), 623;BMJ
302 (1991), 120. Meanwhile in Japan the Ministry of Education, Science and Culture
has not provided much funding for genome research, and it is unlikely to provide
much over the next few years: Nature
349 (1991), 360. There are also some reductions in the expectations for US geneome
project funds: Science
251 (1991), 742-3.
The discovery of all the genes will result in a new way of thinking about what biology
is, a shift from experimental biology to using computer-based databases. This is
the theme of W.Gilbert (1991) "Towards a paradigm shift in biology", Nature
349: 99. Biologists have to adjust to use new methods for solving problems, including
being hooked into computer databases, and using whatever testkits are available,
and apply this to their biological problems.
Several US companies that have been set up to perform some of the research for the
human genome project are mentioned in a report in Scientific American
(Jan 1991), 86-7. The debate about how much is patentable from the project will
continue, and depends to some extent on whether particular countries want private
companies to perform such research or not.
A summary of the current US-funded model organism studies is in Human Genome News
2:5 (Jan 1991), 1-2. In includes description of the roundworm studies (C.elegans
), and projects in yeast, E.coli
, Mycoplasma and mouse. A useful newsletter on the US DOE and NIH genome project
is Human Genome News, which is distributed free of charge, apply to Betty K.Mansfield,
HGMIS, Oak Ridge National Laboratory, P.O.Box 2008, Oak Ridge, TN 37831-6050, USA.
A paper by B.J.Thomas & R.Rothstein (1991) "Sex, maps, and imprinting", Cell
64: 1-3, discusses why the genetic maps found in males and females are different.
When these maps are based on the frequency of crossing over the female maps are
about 90% longer than the male maps! In physical length they are obviously not so
different, and they propose a model to explain this based on the transcriptional activity of
genes during the formation of gametes that occur as a result of imprinting. This
would suggest that regions of the genetic linkage maps that have large gaps contain
genes that are very active during gametogenesis. This will be able to be tested.
Letters regarding the human genome project in the USA continue, and several are in
Science
251 (1991), 854-5; Nature
350 (1991), 104. They debate whether the objective of the project was really to sequence
genes, or to look at genetic diseases in general, as an extension of existing projects
with additional research funds. A summary of two recent meetings, including one of the NIH-DOE ethics committee is in Human Genome News
2 (March 1991), 9-10 & 15-16. Guidelines for human linkage maps based on the conclusions
of a 1990 conference are in Annals Human Genetics
55 (1991), 1-6.
The genome sequences will provide a method to trace the history of molecular evolution
in a detailed way, especially as fossil DNA remains can be sequenced and compared
to current day sequences. A discussion on this was in Robert Pollack, "Genes and
history", NS
(8 Sept 1990), 44-5. His new book is entitled Reading DNA
and is published by Harvard University Press, 1991. The sequences will not allow
us to predict the future changes, and it will be dangerous for us to attempt to modify
such sequences. The DNA sequence from 8,000 year old human tissue in Florida was
recently reported; Nature
349 (1991), 785-7; Lancet
337 (1991), 608; NS
(9 March 1991), 18. The sample used for PCR analysis was from brain tissue preserved
in wet peat.
A comment on the rate at which genetic disease alleles are being mapped is by G.A.
Nicholson (1991) "Mapping brain genes", Medical J. Australia
154:7-9. Many neurological diseases are being mapped, but there will be many more,
and higher estimates suggest that 75% of our genes are expressed in the brain. Also
of interest is a general paper supporting the genome project by Paul Berg (1991)
"Reverse genetics: its origins and prospects", Biotechnology
9: 342-4.
A new DNA research institute is being built in one of the new science "cities" of
Japan, in Chiba; Nature
349 (1991), 640. It will be funded initially by the local government and private
sources, and is intended to be focused on developing DNA sequencing technoogy and
the sequencing task. The funding of the genome project and genetic mapping in Europe
is discussed in Nature
350 (1991), 261. A comment on the new U.K. funding is in Human Genome News
2 (March 1991), 1-3.
A review of the book Genes and Genomes,
by Maxine Singer & Paul Berg (Blackwell/University Science Books 1990, pp. 929, 27.50)
is in Nature
349 (1991), 752. It includes much of the history of genetics in eucaryotes, in addition
to much biological explanation.
The proceedings of the XXIVth CIOMS Round Table Conference held in Tokyo and Inuyama
last Jul, have been publised as Genetics, Ethics and Human Values. Human Genome Mapping, Genetic Screening and Gene
Therapy,
eds. Z.Bankowski & A.M.Capron (Geneva: CIOMS 1991). The 200pp. document can be obtained
from CIOMS c/o WHO, Avenue Appia, 1211 Geneva 27, Switzerland. There are papers
on these three subthemes, covering the multidisciplinary conference. Two papers from
the Council for Responsible Genetics on genetic discrimination, and the genome project
appear in IJB
1 (Dec. 1990), 214-226.
A general introduction to the genome project is in J.Beckwith, "Foreword: The Human
genome Initiative: genetics' lightening rod", AJLM
XVII: 1-15. See the other references in the ethics section of genetic screening
from the special AJLM
XVII issue.
Genetic information has much potential to be used in schools and this is the subject
of D.Nelkin & L.Tancredi, "Classify and control: genetic information in the schools",
AJLM
XVII: 51-73. The problem of classification of students on the basis of the results
of the genetic screening is a key issue, and the privacy issues, misclassification
of students in streamed classes, and the right to refuse testing. Recently I asked
some Japanese students what they would do if they had a genetic or chemical method to
improve the learning ability of their putative future children, would they let there
children have more free time? Many responded that they would still want them to
work hard, no mater what the improvements that could be made in easier ways. The question
of education will be interesting in the future, as alternative methods to improve
intelligence are sought. Most importantly there needs to be a decline in the desire
for children to have high grades and high levels of memorised knowledge to be the judgement
of a successful childhood.
A report on a project underway to prepare a map of the dog genome is in Science
252: 382; NS
(8 June 1991), 18. Comments on research funding appear in Science
252: 490-3, 625; Nature
351: 11-2. Comments on the paradigm shift in biological research that the genome
project results may bring, see Nature
351: 9.
The coordination of the European Genome research project is discussed in a new report,
from the European Science Foundation, Report on Genome Research 1991
, reviewed in BMJ
302: 865. Discussion of European biological research organisations is in Nature
351: 91-2. On the subject of the US DOE's genome project see a report in Science
252: 498-501.
In EEIN
1: 41 a report on the use of fossil DNA was made. The oldest DNA so far isolated
is from chloroplasts of a fossil magnolia leaf, at least 16 million years old. But
their are biochemical doubts about DNAs survival over such a period; NS
(11 May 1991), 44-48. The oldest living bacteria have been isolated from old Mastodon
intestines, thought to be about 11,000 years old; NS
(1 June 1991), 22; Quarterly Review
(July 1991). The bacteria survived in a peat bog in Ohio for so long in the cold and
anaeorbic conditions, in a state of suspended animation. The DNA of bacteria should
have changed dramatically over such a long evolutionary period.
A book review of Joel Davis, Mapping the Code
(294pp, US$22, Wiley 1991) is in Nature
351: 280. There will be increasing numbers of popular books about the genome project.
A special issue of the journal Bioethics
(July, Vol. 5, No. 3) is devoted to discussion of the human genome project and where
the map will lead us. It includes the following papers; D. Macer, "Whose genome
project?", p. 183-211; D.C. Wertz & J.C. Fletcher, "Privacy and disclosure in medical
genetics examined in an ethics of care", p. 212-32; L. Skene, "Mapping the human genome:
some thoughts for those who say "there should be a law on it", p. 233-49; B. Andreasaen
Rix, "Should ethical concerns regulate science? The European experience with the human genome project", p.250-256. These are all relevant to the ethics of the human
genome project, and cover the issues raised by it. The paper by Macer argues that
the information arising from the human genome project is common knowledge, and should
be shared by all of humanity. The owners are all people, and the control of the project
should not be left to those who fund the project, or the private interests that benefit
from the information. Wertz & Fletcher focus on the problems of disclosure of information obtained from genetic tests, and include reference to their international
survey of geneticists. Skene asks whether it is necessary to always create laws
to govern new developments, but rather we need only focus on the applications that
are novel.
In the July issue of Human Genome News
, p. 12-4, there three conference reports from U.S. meetings that considered the ethics
of the genome project. The meetings were held in Houston, Washington D.C., and Minneapolis,
and ask more questions about the genome project. see also P. Brown & D. Concar, "Where does the genome project go from here?", NS
(17 Aug 1991), 13-4.
Favourable comment on the funding of the human genome project is in JAMA
265: 3132-4. On the question of huge scale science funding is the US space station
project, which continues to be funded; Science
252: 1483. There is a debate going on as to the amount of extra money that should
be spent to improve the accuracy of the genetic sequences that are determined, and
computer programs to find some errors are available; Science
252: 1255-6. There is also debate on the extent to which a complete DNA sequence
should be sequenced, and how human evolution should be traced; Nature
352: 567.
A paper on a new and cheap methodology for cDNA sequencing is M.D. Adams et al., "Complementary
DNA sequencing: expressed sequence tags and human genome project", Science
252: 1651-6; see also Science
252: 1618-9;Nature
352: 20-1. They conducted automated partial DNA sequencing, and identified 337 new
genes, and mapped many to chromosomes. It was done very quickly, and very economically,
and is an alternative to the current genome mapping strategy.
The US HUGO office may be affiliated with John Hopkins University, so that it can
receive US Federal funding; Nature
352: 3. There are also financial problems for the HUGO office in Osaka, Japan.
A new HUGO office opened recently in Moscow, with Soviet Government funding; Nature
351: 683.
On the 11th gene mapping workshop see NS
(17 Aug 1991), 5. After the workshop an extra 600 genes where reported mapped, bringing
the total to about 2500. Baroness Warnock (23 Aug 1991) called for a Royal Commission
in the UK to investigate the issues raised from the project.
On the question of data storage and publishing see M.J. Cinkosky et al., "Electronic
data publishing and GenBank", Science
252: 1273-7. Their model is that the conclusions of sequence data are published in
paper, but the data is in electronic databases. On the problems with the current
US Genome Database see Nature
352: 94.
The Japanese Science and Technology Agency is setting up a new DNA analysis centre
supported by private companies as part of the genome project in Japan; Nature
351: 593. The rice genome is also to be mapped, but the industrial collaboration
will make problems for the immediate and free disclosure of information; Science
252; 1611. For comment on the progress of the genome sequencing of the worm, Caenorhabiditis elegans
, see Science
252: 1619-20. The pig genome may also be sort;
On the space station cutting off funds from other projects see Nature
352: 175. 352: 180.
Comments on big science funding appear in Nature
352: 272; Science
253: 128-30. On US federally funded research see Science
252: 1765. On the management of science see a book review in Nature
352: 390-1. A comment on the search for plant genes is in Plant Cell
3: 645-6. A new book is Joel Davis, Mapping the Code
(294pp., 15, John Wiley 1991), reviewed in NS
(10 Aug 1991), 47.
Future HUGO-organised Human Gene Mapping Workshop's may be reorganised because of
the large numbers attending; Nature
352: 747, 352: 117-8; Lancet
338: 502; BMJ
303: 487. In the 10th meeting in August the locations of an extra 600 genes, and
2000 additional sequences were announced. As of September, the grand total for mapped
genes was 2,316 and for sequences, 6,831. The estimated number of total genes in
humans may be 100,000; the number is increasing as sequencing of other genomes reveals
more genes than expected. In the year Sept. 1990 to August 1991, about 80 genes
for clinically recognised diseases were mapped. On a US meeting see Science
253: 376. HUGO will have a new director, Norton Zinder; Science
254: 19.
On research into the ethical issues see Lancet
338: 502; and an ASHG Human Genome Committee Report is in AJHG
49: 687-91. See also Nature
353: 2, 598; NS
(31 Aug 1991), 8. On the usefulness of the sequence for research into human population
genetics; Nature
352: 567; L. L. Cavalli-Sforva, "Genes, peoples and languages", SA
(Nov 1991), 72-79. See also NS
(28 Sept 1991), 56-7, (19 Oct 1991), 20; PNAS
88: 8720-4; Science
253: 1467, 1503-7. On sequencing ancient DNA see Science
253: 1354-6.
For a general review; E.D.Green & R.H. Waterston, "The human genome project. Prospects
and implications for clinical medicine", JAMA
266: 1966-75. On scientific issues; PNAS
88: 7474-6, 7477-80; on the parameters of the human genome, and on radiation hybrid
mapping, respectively. On new computer methods for sequencing; Science
253: 1489. As mentioned earlier, a single patent application for 337 human genes
raises questions about the patenting policy; Nature
353: 485-6. However, there is no demonstrated utility, so in addition to ethical
or policy issues, it may fail on this ground. There is a claim that many researchers
are wasting much money in such patent applications for raw gene sequences; NS
(7 Sept 1991), 22.
The Japanese government is spending more money on genome mapping, see Nature
353: 3; the new STA budget proposes spending US$11 million on genome research next
year. Other agencies also finance such research, though the total is still relatively
small. On international funding see Science
253: 255. On contracts from the NIH for genome research to private industry see
Science
253: 743. The rice genome project is also being supported, by money from horse racing
that is also financing a horse genome project; Nature
353:99.
The controversy associated with the patent applications for numerous human gene sequences
continues (EEIN
1: 81). The number of applications could rise greatly, as robotic machines could
sequence 75kbases of DNA a day, up to 100 genes. Critics of patenting claim that
it may discourage industrial investment; Science
254: 184-6, 1276; Biotechnology
9: 1310-11. There is still much doubt over whether the application will be successful;
Nature
354: 174. Nature
has called it the end of the innocence of new biology, though the data has little
value itself and it may be a miscalculation; Nature
354: 171-2; BMJ
303: 1286. The response from British genome sequencers at the MRC may be protection
of sequences; Science
254: 1583; BMJ
303: 1353-4; Nature
354: 96, 426, which would damage even further the ideal of data-sharing and the internationalisation
of the project, though it has been denied. The White House Office of Science and
Technology Policy is examining the issue of gene patenting; Science
254: 1104-5. The issue has very broad implications, and it would be useful to sort
it out as early as possible, at governmental levels.
A view from the biotechnology industry of the genome project is in B.F. Mackler &
M. Barach, "The human genome project in the United States: a perspective on the commercial,
ethical, legislative and health care issues", IJB
2: 149-57. There are not immediate commercial applications of the genome project,
rather that will wait for diagnostic and therapeutic applications of the genetic
knowledge. There are however, already some commercial spinoffs of the genome project,
the techniques, information processing, sequencing machinery and other lab. machinery.
On improved software for cell sorters see GEN
(Nov/Dec 1991), 45. Improved computer programs for DNA data analysis are discussed in
Science
254: 805.
A report on human gene mapping is in Nature
353: 798-9. The concerns about how well the databases of sequence reflect current
progress are discussed in Science
254: 214-5, and the call is made for funding organisations to insist on sharing sequence
data as a prerequisite for further funding support (or continuation of funding).
Reviews of databases are in Science
254: 201-7, together with a pullout genome map of Drosophila, and a chromosome by
chromosome account of the number of human genes mapped and the number of markers
that have been reported. The remains of a 4,000 year old human in Austria are being
utilised for DNA comparisons; Science
254: 187-8. There is increasing support for a genetic survey of all people's of
the world; EEIN
1: 81; Science
254: 517.
A letter saying that the human genome project goal to sequence all the DNA is not
beneficial as has been claimed is in Nature
353: 691; in contrast see FASEB J.
5: 2885; TIBS
16: 454-61. The NIH budget application breakdown is in Science
254: 791, for a total of about US$8 billion. The genome projects of other organisms
are discussed in Science
254: 528, and on gene trees of mice strains see Science
254: 554-8. On the canine genome project see the New York Times
(1 Dec 1991), C1, 12; and on Drosophila
project see a review in Science
254: 221-5. On the evolution of genome size of birds; J. Heredity
82: 363-8.
A paper on ethics and the human genome is in BME
(Oct 1991), 25-31. See also Science
254: 1664-5; Nature
354: 323. The role of HUGO as an intermediatory between many scientists is expanding;
Science
254: 932. On the methodology of genome sequencing see Biotechnology
9: 1341-5.
Reviews of several recent books on the ethical implications of genetics, including
a review of Shaping Genes,
are in BME
(Oct 1991), 32-3.
A controversy has arisen over the offer from an American millionaire industrialist,
Frederick Bourke, to set up a commercial company to complete the sequencing of the
C. elegans (nematode) genome, drawing two key scientists from other posts. Dr. J.
Sulston of the MRC Laboratory of Molecular Biology in Cambridge, U.K., and Dr. B. Waterton
from Washington University in St Louis, USA, have been cooperating on the sequencing
of the C. elegans
genome. There is a shortage of government money to complete the sequencing, so
the offer from the private company will allow the completion of the sequence, using
automated DNA sequencing technology developed by L. Hood in the USA. However, they
will want to attempt to patent the genes, though Sulston has said that he will only join
the project if the DNA sequence is immediately available to other scientists; NS
(1 Feb 1991), 13; (8 Feb 1991), 17; Nature
355: 483-4.
On the funding of the Genome Data Base at John Hopkins University, USA, see comments
in Human Genome News
(Nov 1991), 1-6. The contact address for the database is:
Michael A. Chipperfield; William H. Welch Medical Library; 1830 E. Monument Street,
Third Floor; Baltimore, MD 21205.
On database contamination see Nature
355: 211.
The patenting of genetic material from the sequencing of DNA in the NIH case has been
criticised by HUGO; NS
(18 Jan 1991), 12. See also comments in Science
254 (1991) 1710-2; Biotechnology
10: 52,55; Nature
355: 103, 104, 194, 292. An NIH panel has criticised the decision to apply for gene
patents; Biotechnology
10: 120. The future of HUGO and shared information is discussed in Nature
355: 4-5; see also Science
255: 27.
There have been some ownership debates over the remains of a person frozen for 4000
years, and these still continue, but now it appears that research will begin; NS
(11 Jan 1991), 17-8; Lancet
339: 296-7. The corpse is in Innsbruck. Also on the genome project see a book review
in JAMA
267: 299-300.
A paper on some of the ethical and practical issues of applying the results of human
genome research is G. Geller & N.A. Holtzman, "Implications of the human genome initiative
for the primary care physician", Bioethics
5: 318-325.
On the science of DNA sequencing see A.J. Kostichka et al., "High speed automated
DNA sequencing in ultrathin slab gels", Biotechnology
10: 78-81. The output from the machine is about 450 bases of sequence information
in less than one hour, though the instrument actually sequences 8000 bases of total
DNA an hour.
A general editorial on the genome project is in JMG
29: 1-2. The debate on
patenting
genetic material was discussed above, in the patents section. The UK position is
that it is against patents, but the MRC also applied for patents in case patents
are awarded; BMJ
304: 725-6. Their case against patents would be stronger if they had not applied
for a patent. Rather after such an application for what they said would be unethical
subject matter for patents, we will only further doubt the ethics of the administrators and researchers involved with the UK genome effort. In any case, an early decision
on the validity of such patents is desired, and such a decision may come by June;
NS
(21 March 1991), 12, following government pressure.
A discussion on the ELSI studies in the USA is in JAMA
267: 1715-6 (see also the conference reviews). A call for public involvement is
made in JAMA
267: 653.
A review of the human genome project is in SA
(April 1992), 98-105. An African-American reference Family Panel containing family histories
and DNA samples is being built up in Howard University, Washington D.C.; Human Genome News
3: 4. The use of mitochondria to trace family histories and human evolution is discussed
in NS
(22 Feb 1992), 10, and a debate on human origin theories between the single Eve idea (we
all evolved from an African mother 200,000 years ago) versus longer separation is
in SA
(April 1992), 98-105.
An
orchid
gene repository is being established; Science
255: 1359. The
rice
genome project in Japan is advancing; Nature
356: 181. Recently, researchers identified a gene determining whether rice will
be fluffy or not, which is important for taste.
Scientific
papers on the topic include: J. Sulston et al., "The C. elegans
genome sequencing project: a beginning", Nature
356: 37-41, 14-5. Comment on the commercialisation of the C. elegans
sequencing (EEIN
2: 25) are in Science
255: 677-8. The use of dyes and mass spectrometry is being advanced as an idea for
speeding up gene sequencing, and electron micrographs of base pairs of DNA are shown
in NS
(29 Feb 1992), 19.
The debate over the patenting of cDNA sequences was discussed above, in the patenting
section. European scientists have called for a treaty on human gene patents, and
have stopped sending their sequence data to the UK MRC gene sequence database; Science
256: 727; NS
(9 May 1992), 5, NS
(11 April 1992), 7. In the UK a new genome center may be established, with funding by
the Welcome Institute; NS
(16 May 1992), 7; Nature
357: 99. Industrial methods to map DNA are discussed in Science
256: 463; Biotechnology
10: 478, 80.
As discussed in the patent section, Jim Watson quit as head of the NIH Genome Project;
Science
256: 171, 301-2, 956-8; Nature
356: 463, 569; BMJ
304: 1132-3. Canada has begun a genome project, joining the US, France, Britain,
Germany, Europe, Japan and South Korea; Nature
357: 428; Science
256: 1514. It has commited C$22 million over the next five years. A total of 7.5%
of the funds will be devoted to ethical, social and legal issues (ELSI), much more
than in other countries. In Japan the total to be spend on ELSI studies in 1992
is about 10 million (the same for the next five years), a very small total (about US$85,000).
The concentration of genes along the chromosomes is not uniform, the highest concentration
is reportedly in the telomeric bands of metaphase chromosomes; PNAS
89: 4913-7. The use of sequence tagged sites for genome mapping is discussed in
PNAS
89: 3681-5. However, French researchers have released a complete map of chromosome
21, using YACs and they estimate that 90% of the human genome can be mapped by the
end of 1992, but it will take longer for the rest. The used a total of 250 megaYACs
to map chromosome 21, and estimate a total of 30,000 YACs will be needed for the whole
chromosome; NS
(23 May 1992), 3, 5. On human genetics and geography see Nature
357: 284-5, 326-9, 329-33, 440-1; PNAS
89: 2277-81; JAMA
267: 2158.
Progress on the mouse genome project is summarised in HGN
(March 1991), 6-7. The yeast genome project is progressing well, with the sequencing
of an entire chromosome, Nature
357: 13, 38-46, see also Science
256: 462, 730. The cDNA sequencing of C. elegans
, the nematode, is in Nature Genetics
1: 79-80, 114-31. The use of fingerprinting analysis in birds is discussed in Heredity
68: 481-94. Relating to plant genome data see Theor. Applied Genetics
83: 931-39; Genome
35: 171-81; and on the costs of DNA sequencing see Nature
357: 106, where an estimate of US$1 per base is made, for one project, and US$3 per
base for another project. Finding errors in DNA sequences is described in PNAS
89: 4698-702.
A review of the Houston conference (EEIN
2: 29-30) is in Nature Genetics
1: 77-8. Related to the information arising from the Human Genome Project, some
say that society is not ready for the results; NS
(2 May 1992), 9; Science
256: 549-50; BMJ
304: 1187-8. A review of human genome research in Europe by W. Bodmer is in Science
256: 480-1.
The NIH patent application debate is commented on in the patents section above.
The scientist involved, Craig Venter, has left the NIH devoted to begin a non-profit
genome research institute, that is funded by a new company 'Human Genome Sciences
Inc.'; Science
257: 151-2; Nature
358: 95. Other companies may be reluctant to enter the cDNA sequencing area because
the task should be completed within a short time; Nature
358: 180. A French project,
Généthon
, is taking the lead in genome mapping, though it is the world's largest gene mapping
lab; Nature
357: 526-7. A human genetic map is expected to be 90% complete by the end of 1992.
It uses automatic robotic analysis systems. Scientists attending the first North-South
Human genome Conference in Caxambu, Brazil, emphasised the need for sharing the results of the project, and we hope that government policy makers and lawyers will agree
with their statements. A new center in Cambridge, U.K. is being funded by the Welcome
Trust, to be called the Sanger Center; NS
(1 Aug 1992), 12-3; Science
257: 603.
The
Canadian
genome research program may be about C$60 million over 5 years, including 7.5% on
ELSI issues; Lancet 339: 1530. An English-language review of H.-M. Sass (ed.), Genomanalyse und Gentherapie. Ethische Herausforerungen in der Humanmedizin
(Berlin: Springer 1991, 347pp, DM98) is in Bioethics
6: 177-80; see also J. Medical Ethics
18: 107. A review of Code of Codes,
is in Science
257: 981-2; also for a related book review see J. Medical Ethics
18: 109-10.
The success of genome studies on the nematode worm, C. elegans
, (EEIN
2: 40), are commented on in Human Genome News
4 (May 1992): 1-2. Sequences and a report on the project on the bacteria E.coli
are published in Science
257: 771-8. A status report of the genome sequencing in model organisms is in Biotechnology
10: 760-1. As of June 4, 1992 from the EMBL databank, 76% of the E.coli
genome had been sequenced, 27% of S. cerevisiae
(yeast), with 0.6% of the human sequence deposited. On sequence determination and
probing see Biotechnology
10: 757-8. On the mouse genome map from the mouse project see Genetics
131: 423-47; Lancet
339: 1534. Analysis of the composition and function of yeast proteins is in Nature
358: 287; and on the relationship of new gene sequences reported from yeast and C. elegans
to older sequences, Nature
357: 543-4. A proposal for gene mapping is J.F. Sabl & C.D. Laird, "Epigene conversion:
a proposal with implications for gene mapping in humans", AJHG
50: 1171-7.
The resignation of J.D.
Watson
as director of the NIH NCHGR is reported in Human Genome News
4 (May 1992), 3; and discussed in GEN
12(7), 3, 24. The reporting of his resignation by Human Genome News
is criticised as propaganda in Nature
357: 524. A review of the project is E. Jordan, "The Human Genome Project: Where
did it come from, where is it going?", AJHG
51: 1-6.
A report on the activities of a NIH-DOE task force on genetics and
insurance
is in Human Genome News
4 (May 1992): 6-8. Criticism of the project is in A.I. Tauber & S. Sarkar, "The Human
genome project: has blind reductionism gone too far?" Perspectives in Biology & Medicine
35: 220-35. General US government science funding is discussed in Science
257: 157-8, noting that the SSC project has not been funded. A book review of interest,
Big Science,
is in Science
257: 110-1.
The software and
informatics
retrieval systems in the USA and the involvement of the National Center for Biotechnology
Information is discussed in Science
257: 156-7. On statistical analysis of sequence see S. Karlin & V. Brendel, "Chance
and statistical significance in protein and DNA sequence analysis", Science
257: 39-49. Sequence analysis methods are discussed in Biotechnology
10: 751-5. See also a book review in Biotechnology
10: 772.
The structure of DNA can be examined over longer range regions, and there are some
correlations extending over long range found already; Nature
358: 103. The unstable properties of DNA are discussed in AJHG
51: 7-9.
The issue of cDNA
patents
was discussed in the patents section. Papers on the commercialisation of the human
genome, in French are in the Lettre du Comite Consultatif national d'ethique pour les sciences de la vie et de
la sante
(March 1992), 16 page supplement.
A series of commentary papers from a conference organised by the Hastings Center,
the Genetic Prism, on ELSI issues is in a 16 page Supplement to the July/August issue
of the Hastings Center Report.
There are also book reviews of T.F. Lee, The Human Genome Project,
and S. Krimsky, Biotechnics and Society,
on p. 38-9. Reports on the ELSI programs of the US DOE and NIH are in Human Genome News
(July 1992), 1-4. A bibliography of 2400 papers, books and articles on the ELSI issues
of the Human Genome Project has been prepared by Michael Yessley, contact him Fax
Int+1-505-665-4424, at the Los Alamos National Laboratory, New Mexico. The database
is on-line and updated and searches on particular topics can be made.
Physical chromosome maps
(overlapping cloned pieces of the complete chromosome) of two chromosomes have been
published recently; I. Chumakov et al., "Continum of overlapping clones spanning
the entire human chromosome 21q", Nature
359: 380-7; for the Y-chromosome see Science
258: 52-60. For a general review of the approaches see Nature
359: 367-8; Science
258: 11. Meanwhile, researchers in France describe improved techniques which means
we can approach mapping by looking at the whole human genome, not individual chromosomes;
C. Bellanne-Chantelot et al., "Mapping the whole human genome by fingerprinting yeast artificial chromosomes", Cell
70: 1059-68. The French genome project is discussed in Science
258: 28-30; and the Genethon center is described in Science
257: 1856-7. A method for DNA sequencing is reviewed in R.A. Mathies & X.C. Huang,
"Capillary array electrophoresis: an approach to high-speed, high-throughput DNA
sequencing", Nature
359: 167-9. Letters on computer speed for sequence comparison are in Science
257: 1609-10. On the automated approach see GEN
(1 Oct 1992), 8-9.
The current (published that is!) status of the genetic mapping is reported in NIH/CEPH
Collaborative Mapping Group, "A comprehensive genetic linkage map of the human genome",
Science
258: 67-86, 148-62. X-chromosome analysis is described in Science
258: 103-10, and 40% is already in physical cloned maps.
The construction of a YAC library for 30% of the model
plant
organism, Arabidopsis thaliana
, is reported in Aust. J. Plant Physiology
19: 341-51. A conference report on scanning probe microscopy is in Lancet
340: 600-1. These microscopes have a magnification of 100 million times and resolution
of one-hundredth of the diameter of atoms and can be used on living cells or molecules.
People interested in the Japanese rice genome project (China also has announced a project) can receive a newsletter, Rice Genome,
contact
Rice
Genome Research Program, National Institute of Agrobiological Resources, 2-1-2 Kannondai,
Tsukuba, Ibaraki 305, Japan (FAX +81-298-38-7468).
Papers on the science aspects, include a review on the Alu PCR system for identifying
DNA fragments in Human Genome News
(July 1992), 6-7. The long range construction of DNA and the similarity to fractals (from
chaos theory) are discussed in SA
(Sept 1992), 13-4. Of related interest is a question in molecular biology about the reason
why there are exons and introns, see H.M. Seidel et al., "Exons as microgenes?",
Science
257: 1489-90; R.F. Gesteland et al., "Recoding: reprogrammed genetic decoding", Science
257: 1640-1.
An editorial on US research funding and
NASA
projects calls for the space station project to stop; Nature
358: 609. Another editorial asks whether research benefits can be proved, looking
at the US budget Nature
359: 173-4. Japanese science budgets may be increasing next year, Nature
359: 96. Japan is giving US$600,000 to the Genome Data Base in Baltimore; NS
(29 Aug 1992), 6. This is still less than half of the European contribution, but a good
sign.
Research on the
genetic diversity
and relationships of human beings is described in Science
257: 1204-5. Researchers are making a list of 400 populations to sample, and take
about 25-50 individual samples from each of these. Research on Indo-European migration
is reported in R.R. Sokal, et al., "Origins of the Indo-Europeans: Genetic evidence", PNAS
89: 7669-73; Science
257: 1346. They find that neither of the current major hypothesises on the origin
of this broad group are supported by genetic data, and a further model is required.
A review of the study of the 5,300 year old ice man is in Time
(26 Oct 1992), 44-51.
A sample of 30 million year old DNA has been analysed, and described in R. DeSalle
et al., "DNA sequences from a fossil termite in Oligo-Miocene Amber and their phylogenetic
implications", Science
257: 1933-6, 1860-1. This is the oldest DNA yet analysed; NS
(17 Oct 1992), 15. The use of genetic studies to look at the relationships and
evolution
of animals and plants is described in papers, A. Cooper et al., "Independent origins
of New Zealand moas and kiwis", PNAS
89: 8741-4; "Reconstruction of genomic rearrangements in great apes and gibbons by
chromosome painting", PNAS
89: 8611-5; J. Bousquet et al., "Extensive variation in evolutionary rate of rbcL
gene sequences among seed plants", PNAS
89: 7844-8. A theoretical model of the selection of DNA bps in gene-regulatory binding
sites is tested in E.coli
in PNAS
89: 7501-5.
Further on the newly founded Genomic Research Institute that Dr C.
Venter
is directing (EEIN
2: 67) is in GEN
(Aug 1992), 1, 22. He estimates that during the last two years at the NIH they identified
8,000 human genes. They expect to sequence about 2,000 to 3,000 genes per week,
so that the cost falls to about $US$20 each, from the current US$40,000 per gene.
The genome project should be completed very soon. The representatives of the new institute
say that they will not apply for broad patents, but intend only to apply for patents
on a few key genes with suggested utility, and will publish results within 6 months of discovery; Science
257: 1620.
A general review of the issues raised by the HGP from a Christian viewpoint is J.
Bryant, Science
and Christian Belief
4(2), 105-25. A conference report from an April conference "The Genie in the Genome"
is in Human Genome News
(Sept 1992), 12. HUGO has reestablished an ethics committee chaired by Victor McKusick,
Alain Pompidou and Nancy Wexler, and they had a meeting 9-11th October in Amsterdam.
A review of the Second International Fukui Bioethics Seminar (see the books Human Genome Research and Society
advertised on back page) by N. Fujiki and D. Macer is in Int. Digest of Health Legislation
43: 660-2. A review of G.J. Annas & S. Elias, eds., Gene mapping: Using Law and Ethics as Guides
(Oxford Univ. Press 1992, 291pp., US$40) is in Nature
360: 380-1. A report of a British meeting is in JRSM
85: 710-1. A letter urging people to reveal possible sources of conflict (e.g. monetary
interest) is in AJHG
51: 1168. A book review of R. Shapiro, The Human Blueprint: The Race to Unlock the Secrets of Our Genetic Script
(London: Cassell, 412pp., 17) is in BMJ
305: 1032-3. A critical paper by A. Lippman says that the emphasis placed on the
genome project may have negative eugenic effects on society and health care; SSM
35: 1469-76.
Anthropologists are joining the human gene diversity study; Science
258: 1300-1. A paper describing some aspects of the frozen ice man found in the
European Alps is H. Seidler et al., "Some anthropological aspects of the prehistoric
Tyrolean Ice man", Science
258: 455-7. Some comments on the history of human anthropology are in AJHG
51: 913-5; SA
(Nov 1992), 17; linguistic origins of Native Americans, SA
(Nov 1992), 60-5; human language origins as a means of societal tolerance, NS
(21 Nov 1992), 28-31; chemical evidence for ancient beer, Nature
360: 24; Saharan agriculture using sorghum and millet 8,000 years ago, Nature
359: 721-4.
A new
linkage map
of the human genome is in J. Weissenbach et al., "A second-generation linkage map
of the human genome", Nature
359: 794-801. The average resolution is 5cM. A review of the progress in the genome
project, which predicts a completion date of
1999
for the complete sequence is Nature
359: 777-8; BMJ
305: 851. The USA is setting up a large genome mapping centre, modelled off the
success of the French centre; Nature
360: 401. As reported in EEIN
2: 72, they use a whole genome approach rather than focusing on individual chromosomes.
A nomenclature for pieces of the genome is suggested in PNAS
89: 10706-10, based on using the pot
ential gene idea to call units potonuons and potogenes. The computer analysis of
long distance patterns in DNA sequence is reported in Science
258: 895; Nature
359: 782. A microscopic technique for sizing single DNA molecules is reported in
Nature
359: 783-4. A review on how to visualise biomolecules is in SA
(Nov 1992), 44-51. Gene research on Dictyostelium
is discussed in Science
258: 402-3.
The EC has joined the USA and individual European countries in declaring this a decade
of
brain science
research; Science
258: 23, 387. The 9th October issue of Science
features brain science papers. On the neocortex see Science
258: 237-8; circadian rhythms, p. 238-40; glutamate, p. 241-3; learning, p. 243-5;
memory, p. 245-6; self-remapping of the brain, p. 216-8. See also two 8 page supplements
to New Scientist
(14 Nov 1992), (28 Nov 1992).
A description of how the decisions on how the recent US$210 million extra funding
for breast cancer research will be spent in the USA is in Science
258: 732-4. It also discusses women's health issues. A history of pre-Meiji era
science in Japan by the Emperor Akihito is in Science
258: 578-80. Remarks on basic science funding in the USA is Science
258: 200-1, 880-2; and on public or private research in Japan; Science
258: 582-3.
As of October 1992, the US-located international GenBank Genetic Sequence Database
contained 100 million DNA nucleotides, increased from the 1991 data of 40 million
nucleotides. The site of a new European animal and human genome sequence database
is being debated; Nature
361: 383. The new "European Bioinformatics Institute" may be situated in Heidelberg
or Cambridge. The problems of organising a European Community human genome project
meeting are described in Biotechnology
11: 135.
A review of the commercial investment into the genome project and issues it raises
is in Science
259: 300-2. Time
magazine (8 Feb 1993), 43, has said that the French genome project is on higher moral
ground than the US project, because it is donating the results to the UN and is not
seeking gene patents. In addition, the US has started to adopt the French scientific
approach, focusing on the whole genome rather than individual chromosomes; Science
258: 1573.
Two conference reviews on ethics of genetic technology and the genome project are
in Human Genome News
(Nov 92), 12-3. The U.K. genome project is discussed in Nature
361: 387. The appointment of a new director for the NIH genome project is discussed
in Science
258 (1992), 1723; Francis Collins has verbally agreed to start in March; Science
259: 22. Thomas Caskey has been appointed new president of HUGO; Science
258 (1992), 1575.
A list and map of human diseases mapped onto the genome is reviewed in V.A. McKusick
& J.S. Amberger, "The morbid anatomy of the human genome: chromosomal location of
mutations causing disease", JMG
30: 1-26. A review of mapping progress is in SA
(Jan 1993), 7-9. Scientific papers include: N. Lisitsyn, "Cloning the differences between
two complex genomes", Science
259: 946-51; Nature
360 (1992), 606-10. An automated method to generating expressed sequence catalogues
is reviewed in Nature
361: 375-6. A review of genomic DNA sequencing is in Biotechnology
11: 39-42.
The problems and progress towards a brain data base are reviewed in Science
258 (1992), 1872-3; Nature
361: 109-20. The choice of a male and female to be the basis for digitalisation
is being made; SA
(Jan 1993), 122-3. However, don't offer, because the brain must be dead.
The origin of the different human races is discussed in NS
(16 Jan 1993), 34-7; Science
259: 639-46; Nature
361: 314; SA
(Dec 1992), 16; M.W. Feldman & L.A. Zhivotovsky, "Gene-culture coevolution: Toward a general
theory of vertical transmission", PNAS
89 (1992), 11935-8. A map of the relations between 24 tribes from America is discussed
in Science
259: 312-3. Some DNA samples from the Austrian fossil "iceman" have begun analysis
in Munich; Science
258 (1992), 1871. The ethical implications of the project and policy suggestions
are made by C. Byk, "The human genome project and the social contract: A law policy
approach", J. Med. & Phil.
17 (1992), 371-80.
The NIH and DOE have released guidelines encouraging the
sharing
of data and resources, and stipulating that researchers who receive funds should
publish (and deposit) data within 6 months of discovery; Human Genome News
(Jan 1993), 4.
A review of a US meeting of
ELSI
grantees is in Human Genome News
(Jan 1993), 5-6. They suggested the key areas for further research include client-centered
assessments of new genetic services and technologies, education, and interpreting
genetic variation. A review of the policies developed for genetic family studies
is on p. 7, 9. A new report on ethics and the genome project is The Danish Council of
Ethics, Ethics and Mapping of the Human Genome,
86pp (see address in bioethics centres list).
It includes issues such as protection of sensitive personal information, genetic
screening and testing. A commentary looking at discrimination is B. Muller-Hill,
"The shadow of genetic injustice", Nature
362: 491-2. A philosophical paper on determinism is P.S. Greenspan, "Free will and
the genome project", Phil. & Public Affairs
22: 31-43.
Craig
Venter
has reported at a US conference on the 1st April that they may have listed
95% of all the human genes by 1994
. This may affect policy regarding funding the rest of the genome project, and calls
in an editorial in Nature
for the importance of both approaches are made; Nature
362: 488, 575-6.
Reviews of the fortieth
anniversary
of the DNA double helix paper are in Science
259: 1532-3; Time
(15 March 1993), 40-3; JAMA
269: 1040-5; Nature
362: 105.
On the scientific project, details of the NIH-genome center in MIT, USA, are in Human Genome News
(Jan 1993), 8. The projects include continuing the work of the French Genethon genome
mapping group (Daniel Cohen is also involved in MIT). A review on the long fragment
YAC library made in France is in Science
259: 1684-7. Another scientific center is being set up in the NIH headquarters,
for the new program director, Francis Collins; Nature
362: 581. The new lab will target medical applications; Science
260: 152-3. The UK is also focusing on two large new medical centres; NS
(13 Feb 1993), 7.
Progress on the genetic mapping of behavioural genes in dogs is reported in BioScience
43: 7. The
dog
genome is about the same size as humans, and there are 40 chromosomes. Initially
400 markers will be found. A genetic project on
racehorse
genetics is discussed in Science
259: 1823, though a lack of money has postponed it. The evolutionary relationships
among
whale
species are being redrawn following gene mapping studies; NS
(20 Feb 1993), 15. The automation in the C. elegans
genome sequencing project is reported in Nature
362: 569-70.
Reports on the frozen Austrian iceman are in Nature
362: 11-2, and on general
evolutionary
studies JAMA
269: 1477-8, 80. The global human genetic diversity project, involving samples from
400 tribes around the world, is discussed in Nature
361: 675. Part of a homeobox gene complex in a 30 million year old fossilised insect
has been isolated, and is being analysed in a Japanese laboratory. It follows other
studies published last year on DNA analysis from similarly old samples (EEIN
2: 82). A paper estimating that there are less than 900 ancient conserved regions
in all genes is P. Green et al., "Ancient conserved regions in new gene sequences
and the protein databases", Science
259: 1711-6; 942-3. A report of contamination of cDNA sequences in databases with
nonhuman DNA is in Science
259: 1677-8. The use of magnetic bead capture of expressed sequences is reviewed
in Nature
361: 751-3.
The
brain
mapping project is discussed in Newsweek
(26 April 1993), 52; JAMA
269: 1357. Computing and DNA analysis is discussed in Biotechnology
11 (March 1993), S9; Nature
361: 484; see also, AJHG
52: 442-3. Cambridge is the new site for the improved EMBL genome database; Science
259: 1527; Nature
361: 198.
There were numerous anniversary papers celebrating the 40th anniversary of the DNA
structure paper. To add to the list see general papers on genome projects, gene
therapy and transgenic organisms in NS
(24 April 1993), 21-41; Nature
362: 783; JAMA
269: 1981-5, 1993-4. Book reviews on human genetics and social issues are in JAMA
269: 2003-7. A review of the human genome project by M.V. Olson is in PNAS
90: 4338-44.
A listing of the US Genome Centers, their major goals and accomplishments, and resources
is in Human Genome News
(March 1993), 2-9. The 1994 Fiscal year NIH proposal for the genome project is to increase
from 107 to 135 million US dollars; GEN
(1 May 1993), 3. Breast cancer research may increase from 206 to 422 million dollars
in FY 1994. On European genome research see Science
260: 1740-2.
A letter on the megaYAC library from France is in Science
260: 877; and on database contamination see Science
260: 605-7. A commercial deal to market genes and products of the company Human
Genome Sciences Inc. is reported in Nature
363: 387. It includes the company SmithKline Beecham, in a world-wide marketing
rights deal worth US$100 million. Cosmid maps of the yeast Saccharomyces pombe are
in Cell
73: 109-20, 121-32.
A new technique called genomic mismatch scanning (GMS) increases the speed at which
linkage mapping of multigene traits can be performed; GEN
(1 Jun), 1, 19. The whole genome can be examined by hybridisation after first fragmenting
it. A Stanford University group has used the technique in yeast, and it also works
in humans. It is being commercially developed. Another techique is sequencing by hybridization (SBH) for large scale sequencing, Science
260: 1649-52. On the progress for completely automated sequencers using primer walking
that would revolutionise sequencing see Science
260: 1075. A procedure for cDNA maps is R.Das Gupta et al., "An integrated approach
for identifying and mapping human genes", PNAS
90: 4364-8.
As reported above, the movie Jurassic park has been a success. A scientific paper
reporting the sequencing of genes from a
120 million year old insect
shows that part of the idea is feasible - off course not the whole genome!; R.J.
Cano et al., "Amplification and sequencing of DNA from a 120-135 million year old
weevil", Nature
363: 536-8.
A review of the human genetic diversity project is NS
(29 May 1993), 25-9. Genetic studies on human diversity include, PNAS
90: 4670-3; AJHG
52: 846-7; Annals of Human Genetics
57: 55-64. A report on gorilla genetics shows that they are very diverse and may
be actually 2-3 subspecies; Science
260: 893. On why we walk on two legs and comparison to primates see Nature
363: 587-8.
The US Army received a US$210 million grant to fund breast cancer research, as discussed
previously. It has used peer review and US151 million of the grants will be similar
to NIH investigator-led grants; Nature
363: 195; Science
260: 1068; JAMA
269: 2417. Also on women's health issues and increased funding; Science
260: 744-6; Nature
363: 99-100, 383. A reshaping of UK science is reported in Nature
363: 287, 381-2; BMJ
306: 1498-9.
The conclusions of the
ELSI
working group of the
European Commission
are in BME
(June 1993), 10-11. A series of papers on the ethics issues of the genome project in
French is M.J. Melancon & R.D. Lambert, eds. Le Genome Humain. Une Responsibilite Scientifique et Sociale,
published by Les Presses de L'Universite Laval 1992,180pp. Academic papers on ethics
and genetics in French are also in IJB
4: 111-9;121-4. Book reviews of Gene Mapping: Using Law and Ethics as a Guide
are Biotechnology
11: 837; AJHG
53: 294-5.
Canada's
role in the project is reviewed in CMAJ
148: 1309-13, together with difficulties of introducing genetics into medicine.
General book reviews are BMJ
307: 210; NEJM
329: 584-7. The gathering speed of cDNA gene cloning is discussed in Nature
364: 554, Nature Genetics
3: 189-91.
On the
dog
genome project and behavioural genetics studies, NS
(26 June 1993), 5. Plant systematics and phylogeny using DNA analysis is reviewed in
BioScience
43: 380-9; and plastid DNA trees are in Nature
364: 762-3. (Also see the section on Biotechnology and the Public, on dinosaurs).
A suggestion that "
junk
" DNA may be to check the correct processing of genes is NS
(26 June 1993), 15. Tracing the history of the immune system is discussed in Science
261: 164.
The Eye Research Institute of Canada in Toronto has become the
world's first
clinical diagnostic laboratory for automated DNA analysis; GEN
(July 1993), 1, 15, 39. A report from the first International Symposium on the Mapping
and Sequencing of Small Genomes is in GEN
(Aug 1993), 34-5, 43. The BioInformatics Institute in Cambridge is discussed in TIBTECH
11: 217-8. An indexing method for faster searching of databases has been made, NS
(7 Aug 1993), 20. Robotic methods are discussed in Biotechnology
11: 793-6; Science
260: 1649-52.
China
has announced a genome project, joining the list of countries with a formal genome
project; Nature
365: 200. China has 56 ethnic groups making it interesting to compile data from
such groups. On the economic problems in the
Russian
genome project see Science
261: 1382. The future plans for the French Genethon laboratory are reported in Nature
365: 686.
Several papers on DNA analysis of
ethnic
groups and use to trace relationships between human populations are in AJHG
53: 549-618. General comments on the use of DNA polymorphism for population studies
are in PNAS
90: 7425-6. A review of the methods that allow extraction of DNA from ancient samples
of fossils, and the problem of oxidation of DNA over time, is Nature
365: 700. A database of
ancient
DNA sequences is a recent addition to the range of databases available; Nature 364:
19-20. A general comment on the marriage of computers and biology is Nature
365: 9.
Commercial
genome sequencing in the USA is receiving another US%125 million from Smith Kline
Beecham, in an agreement with Human Genome Sciences, Biotechnology
11: 982. Further comments on commercial genome research, and the strategy of applying
genes found by the project for use, GEN
(15 Sept 1993), 1, 8, 29.
A review of parallel genome analysis by two-dimensional DNA typing is in Nature
365: 469-71. The system is partially automated.